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@article{DBLP:journals/bmcsb/AdapaTWTJJ19,
  author    = {Swamy Rakesh Adapa and
               Rachel A. Taylor and
               Chengqi Wang and
               Richard Thomson{-}Luque and
               Leah R. Johnson and
               Rays H. Y. Jiang},
  title     = {Plasmodium vivax readiness to transmit: implication for malaria eradication},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {5:1--5:12},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-018-0669-4},
  doi       = {10.1186/s12918-018-0669-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AdapaTWTJJ19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Anda-JaureguiGM19,
  author    = {Guillermo de Anda{-}J{\'{a}}uregui and
               Kai Guo and
               Brett A. McGregor and
               Eva L. Feldman and
               Junguk Hur},
  title     = {Pathway crosstalk perturbation network modeling for identification
               of connectivity changes induced by diabetic neuropathy and pioglitazone},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {1:1--1:11},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-018-0674-7},
  doi       = {10.1186/s12918-018-0674-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Anda-JaureguiGM19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Anda-JaureguiGM19a,
  author    = {Guillermo de Anda{-}J{\'{a}}uregui and
               Kai Guo and
               Brett A. McGregor and
               Eva L. Feldman and
               Junguk Hur},
  title     = {Correction to: Pathway crosstalk perturbation network modeling for
               identification of connectivity changes induced by diabetic neuropathy
               and pioglitazone},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {31:1},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0707-x},
  doi       = {10.1186/s12918-019-0707-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Anda-JaureguiGM19a.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BanckG19,
  author    = {Jan Christoph Banck and
               Dennis G{\"{o}}rlich},
  title     = {In-silico comparison of two induction regimens {(7} + 3 vs 7 + 3 plus
               additional bone marrow evaluation) in acute myeloid leukemia treatment},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {18:1--18:14},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0684-0},
  doi       = {10.1186/s12918-019-0684-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BanckG19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ContadorRAA19,
  author    = {Carolina A. Contador and
               Vida Rodr{\'{\i}}guez and
               Barbara A. Andrews and
               Juan A. Asenjo},
  title     = {Use of genome-scale models to get new insights into the marine actinomycete
               genus Salinispora},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {11:1--11:14},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0683-1},
  doi       = {10.1186/s12918-019-0683-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ContadorRAA19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/DuttaMASZ19,
  author    = {Pritha Dutta and
               Lichun Ma and
               Yusuf Ali and
               Peter M. A. Sloot and
               Jie Zheng},
  title     = {Boolean network modeling of {\(\beta\)}-cell apoptosis and insulin
               resistance in type 2 diabetes mellitus},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13-S},
  number    = {2},
  pages     = {36:1--36:12},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0692-0},
  doi       = {10.1186/s12918-019-0692-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/DuttaMASZ19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GeraldDBS19,
  author    = {Nishant Gerald and
               Dibyendu Dutta and
               R. G. Brajesh and
               Supreet Saini},
  title     = {Mathematical modeling of movement on fitness landscapes},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {25:1--25:10},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0704-0},
  doi       = {10.1186/s12918-019-0704-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GeraldDBS19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GoTIBD19,
  author    = {Natacha Go and
               Suzanne Touzeau and
               Zeenath Islam and
               Catherine Belloc and
               Andrea Doeschl{-}Wilson},
  title     = {How to prevent viremia rebound? Evidence from a PRRSv data-supported
               model of immune response},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {15:1--15:21},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-018-0666-7},
  doi       = {10.1186/s12918-018-0666-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GoTIBD19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HaPP19,
  author    = {Jihwan Ha and
               Chihyun Park and
               Sanghyun Park},
  title     = {{PMAMCA:} prediction of microRNA-disease association utilizing a matrix
               completion approach},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {33:1--33:13},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0700-4},
  doi       = {10.1186/s12918-019-0700-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HaPP19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HaoDKBHTKFWSHK19,
  author    = {Yangyang Hao and
               Quan{-}Yang Duh and
               Richard T. Kloos and
               Joshua Babiarz and
               R. Mack Harrell and
               S. Thomas Traweek and
               Su Yeon Kim and
               Grazyna Fedorowicz and
               P. Sean Walsh and
               Peter M. Sadow and
               Jing Huang and
               Giulia C. Kennedy},
  title     = {Identification of H{\"{u}}rthle cell cancers: solving a clinical
               challenge with genomic sequencing and a trio of machine learning algorithms},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13-S},
  number    = {2},
  pages     = {27:1--27:14},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0693-z},
  doi       = {10.1186/s12918-019-0693-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HaoDKBHTKFWSHK19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JansenPHW19,
  author    = {Martin Jansen and
               Gerhard Puetz and
               Michael M. Hoffmann and
               Karl Winkler},
  title     = {A mathematical model to estimate cholesterylester transfer protein
               {(CETP)} triglycerides flux in human plasma},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {12:1--12:12},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0679-x},
  doi       = {10.1186/s12918-019-0679-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JansenPHW19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KCLCYH19,
  author    = {Kishan KC and
               Rui Li and
               Feng Cui and
               Qi Yu and
               Anne R. Haake},
  title     = {{GNE:} a deep learning framework for gene network inference by aggregating
               biological information},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13-S},
  number    = {2},
  pages     = {38:1--38:14},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0694-y},
  doi       = {10.1186/s12918-019-0694-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KCLCYH19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KrishnanF19,
  author    = {Jawahar Krishnan and
               Ioannis Floros},
  title     = {Adaptive information processing of network modules to dynamic and
               spatial stimuli},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {32:1--32:26},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0703-1},
  doi       = {10.1186/s12918-019-0703-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KrishnanF19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LaiF19,
  author    = {Xiulan Lai and
               Avner Friedman},
  title     = {How to schedule {VEGF} and {PD-1} inhibitors in combination cancer
               therapy?},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {30:1--30:18},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0706-y},
  doi       = {10.1186/s12918-019-0706-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LaiF19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiLGY19,
  author    = {Xiaoying Li and
               Yaping Lin and
               Changlong Gu and
               Jialiang Yang},
  title     = {{FCMDAP:} using miRNA family and cluster information to improve the
               prediction accuracy of disease related miRNAs},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13-S},
  number    = {2},
  pages     = {26:1--26:16},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0696-9},
  doi       = {10.1186/s12918-019-0696-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiLGY19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuBAZFCZ19,
  author    = {Guan{-}Sheng Liu and
               Richard Ballweg and
               Alan Ashbaugh and
               Yin Zhang and
               Joseph Facciolo and
               Melanie T. Cushion and
               Tongli Zhang},
  title     = {Correction to: {A} quantitative systems pharmacology {(QSP)} model
               for Pneumocystis treatment in mice},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {40:1--40:7},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0708-9},
  doi       = {10.1186/s12918-019-0708-9},
  timestamp = {Sat, 30 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuBAZFCZ19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuCGYZGW19,
  author    = {Xiaoting Liu and
               Jinhu Chen and
               Tianyuan Guan and
               Hui Yao and
               Wenpei Zhang and
               Zhenlong Guan and
               Yanqin Wang},
  title     = {miRNAs and target genes in the blood as biomarkers for the early diagnosis
               of Parkinson's disease},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {10:1--10:8},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0680-4},
  doi       = {10.1186/s12918-019-0680-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuCGYZGW19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuCGYZGW19a,
  author    = {Xiaoting Liu and
               Jinhu Chen and
               Tianyuan Guan and
               Hui Yao and
               Wenpei Zhang and
               Zhenlong Guan and
               Yanqin Wang},
  title     = {Correction to: miRNAs and target genes in the blood as biomarkers
               for the early diagnosis of Parkinson's disease},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {20:1--20:2},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0701-3},
  doi       = {10.1186/s12918-019-0701-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuCGYZGW19a.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuLZCZDCLZR19,
  author    = {Lunfei Liu and
               Wenting Liu and
               Yuxin Zheng and
               Jisu Chen and
               Jiong Zhou and
               Huatuo Dai and
               Suiqing Cai and
               Jianjun Liu and
               Min Zheng and
               Yunqing Ren},
  title     = {Anti-TNF- {\(\alpha\)}treatment-related pathways and biomarkers revealed
               by transcriptome analysis in Chinese psoriasis patients},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13-S},
  number    = {2},
  pages     = {29:1--29:9},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0698-7},
  doi       = {10.1186/s12918-019-0698-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuLZCZDCLZR19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuR19,
  author    = {Wenting Liu and
               Jagath C. Rajapakse},
  title     = {Fusing gene expressions and transitive protein-protein interactions
               for inference of gene regulatory networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13-S},
  number    = {2},
  pages     = {37:1--37:13},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0695-x},
  doi       = {10.1186/s12918-019-0695-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuR19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MoskalevPZS19,
  author    = {Alexey Moskalev and
               Ekaterina Proshkina and
               Alex Zhavoronkov and
               Mikhail Shaposhnikov},
  title     = {Effects of unpaired 1 gene overexpression on the lifespan of Drosophila
               melanogaster},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13-S},
  number    = {1},
  pages     = {13--22},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0687-x},
  doi       = {10.1186/s12918-019-0687-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MoskalevPZS19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/OrlovHB19,
  author    = {Yuriy L. Orlov and
               Ralf Hofest{\"{a}}dt and
               Ancha V. Baranova},
  title     = {Systems biology research at {BGRS-2018}},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13-S},
  number    = {1},
  pages     = {21:1--21:2},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0685-z},
  doi       = {10.1186/s12918-019-0685-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/OrlovHB19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PastushkovaRGBK19,
  author    = {Lyudmila Kh. Pastushkova and
               Vasily B. Rusanov and
               Anna G. Goncharova and
               Alexander G. Brzhozovskiy and
               Alexey S. Kononikhin and
               Anna G. Chernikova and
               Daria N. Kashirina and
               Andrey M. Nosovsky and
               Roman M. Baevsky and
               Evgeny N. Nikolaev and
               Irina M. Larina},
  title     = {Urine proteome changes associated with autonomic regulation of heart
               rate in cosmonauts},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13-S},
  number    = {1},
  pages     = {23--31},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0688-9},
  doi       = {10.1186/s12918-019-0688-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PastushkovaRGBK19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ReynoldsHSP19,
  author    = {Elaine R. Reynolds and
               Ryan Himmelwright and
               Christopher Sanginiti and
               Jeffrey O. Pfaffmann},
  title     = {An agent-based model of the Notch signaling pathway elucidates three
               levels of complexity in the determination of developmental patterning},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {7:1--7:16},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-018-0672-9},
  doi       = {10.1186/s12918-018-0672-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ReynoldsHSP19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RozendaalWHR19,
  author    = {Yvonne J. W. Rozendaal and
               Yanan Wang and
               Peter A. J. Hilbers and
               Natal A. W. van Riel},
  title     = {Computational modelling of energy balance in individuals with Metabolic
               Syndrome},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {24:1--24:14},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0705-z},
  doi       = {10.1186/s12918-019-0705-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RozendaalWHR19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SakharovMKNPSBT19,
  author    = {Dmitry Sakharov and
               Diana V. Maltseva and
               Evgeny Knyazev and
               Sergey Nikulin and
               Andrey Poloznikov and
               Sergey Shilin and
               Ancha V. Baranova and
               Irina Tsypina and
               Alexander G. Tonevitsky},
  title     = {Towards embedding Caco-2 model of gut interface in a microfluidic
               device to enable multi-organ models for systems biology},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13-S},
  number    = {1},
  pages     = {3--11},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0686-y},
  doi       = {10.1186/s12918-019-0686-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SakharovMKNPSBT19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SanchezLKN19,
  author    = {Benjam{\'{\i}}n J. S{\'{a}}nchez and
               Feiran Li and
               Eduard J. Kerkhoven and
               Jens Nielsen},
  title     = {SLIMEr: probing flexibility of lipid metabolism in yeast with an improved
               constraint-based modeling framework},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {4:1--4:9},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-018-0673-8},
  doi       = {10.1186/s12918-018-0673-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SanchezLKN19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SunCLS19,
  author    = {Shiquan Sun and
               Yabo Chen and
               Yang Liu and
               Xuequn Shang},
  title     = {A fast and efficient count-based matrix factorization method for detecting
               cell types from single-cell RNAseq data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13-S},
  number    = {2},
  pages     = {28:1--28:8},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0699-6},
  doi       = {10.1186/s12918-019-0699-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SunCLS19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TabeiKSY19,
  author    = {Yasuo Tabei and
               Masaaki Kotera and
               Ryusuke Sawada and
               Yoshihiro Yamanishi},
  title     = {Network-based characterization of drug-protein interaction signatures
               with a space-efficient approach},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13-S},
  number    = {2},
  pages     = {39:1--39:15},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0691-1},
  doi       = {10.1186/s12918-019-0691-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TabeiKSY19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/VermaSV19,
  author    = {Babita K. Verma and
               Pushpavanam Subramaniam and
               Rajanikanth Vadigepalli},
  title     = {Model-based virtual patient analysis of human liver regeneration predicts
               critical perioperative factors controlling the dynamic mode of response
               to resection},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {9:1--9:15},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0678-y},
  doi       = {10.1186/s12918-019-0678-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/VermaSV19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WoffordL19,
  author    = {Joshua D. Wofford and
               Paul A. Lindahl},
  title     = {A mathematical model of iron import and trafficking in wild-type and
               Mrs3/4{\(\Delta\)}{\(\Delta\)} yeast cells},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {23:1--23:16},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0702-2},
  doi       = {10.1186/s12918-019-0702-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WoffordL19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WuWO19,
  author    = {Lili Wu and
               Hongli Wang and
               Qi Ouyang},
  title     = {Constructing network topologies for multiple signal-encoding functions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {6:1--6:13},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-018-0676-5},
  doi       = {10.1186/s12918-018-0676-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WuWO19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/XuePS19,
  author    = {Hansheng Xue and
               Jiajie Peng and
               Xuequn Shang},
  title     = {Predicting disease-related phenotypes using an integrated phenotype
               similarity measurement based on {HPO}},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13-S},
  number    = {2},
  pages     = {34:1--34:12},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0697-8},
  doi       = {10.1186/s12918-019-0697-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/XuePS19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YangELSP19,
  author    = {Laurence Yang and
               Ali Ebrahim and
               Colton J. Lloyd and
               Michael A. Saunders and
               Bernhard O. Palsson},
  title     = {DynamicME: dynamic simulation and refinement of integrated models
               of metabolism and protein expression},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {2:1--2:15},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-018-0675-6},
  doi       = {10.1186/s12918-018-0675-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YangELSP19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YangWYZCG19,
  author    = {Mary Qu Yang and
               Sherman Morton Weissman and
               William Yang and
               Jialing Zhang and
               Allon Canaan and
               Renchu Guan},
  title     = {Correction to: {MISC:} missing imputation for single-cell {RNA} sequencing
               data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {13:1},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0681-3},
  doi       = {10.1186/s12918-019-0681-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YangWYZCG19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YangWZXZSH19,
  author    = {Qichang Yang and
               Jing Wu and
               Jian Zhao and
               Tianyi Xu and
               Zhongming Zhao and
               Xiaofeng Song and
               Ping Han},
  title     = {Correction to: circular {RNA} expression profiles during the differentiation
               of mouse neural stem cells},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {14:1},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0682-2},
  doi       = {10.1186/s12918-019-0682-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YangWZXZSH19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YeH19,
  author    = {Xiaoxin Ye and
               Joshua Wing Kei Ho},
  title     = {Ultrafast clustering of single-cell flow cytometry data using FlowGrid},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13-S},
  number    = {2},
  pages     = {35:1--35:8},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0690-2},
  doi       = {10.1186/s12918-019-0690-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YeH19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZengY19,
  author    = {Hong Zeng and
               Aidong Yang},
  title     = {Modelling overflow metabolism in Escherichia coli with flux balance
               analysis incorporating differential proteomic efficiencies of energy
               pathways},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {3:1--3:18},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-018-0677-4},
  doi       = {10.1186/s12918-018-0677-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZengY19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhaoJSARY19,
  author    = {Yuqi Zhao and
               Deepali Jhamb and
               Le Shu and
               Douglas Arneson and
               Deepak K. Rajpal and
               Xia Yang},
  title     = {Multi-omics integration reveals molecular networks and regulators
               of psoriasis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13},
  number    = {1},
  pages     = {8:1--8:14},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-018-0671-x},
  doi       = {10.1186/s12918-018-0671-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhaoJSARY19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZubairovaVOED19,
  author    = {Ulyana S. Zubairova and
               Pavel Yu. Verman and
               Polina A. Oshchepkova and
               Alina S. Elsukova and
               Alexey V. Doroshkov},
  title     = {{LSM-W2:} laser scanning microscopy worker for wheat leaf surface
               morphology},
  journal   = {{BMC} Syst. Biol.},
  volume    = {13-S},
  number    = {1},
  pages     = {33--44},
  year      = {2019},
  url       = {https://doi.org/10.1186/s12918-019-0689-8},
  doi       = {10.1186/s12918-019-0689-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZubairovaVOED19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AnandSC18,
  author    = {Rajat Anand and
               Dipanka Sarmah and
               Samrat Chatterjee},
  title     = {Extracting proteins involved in disease progression using temporally
               connected networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {78:1--78:13},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0600-z},
  doi       = {10.1186/s12918-018-0600-z},
  timestamp = {Sat, 30 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AnandSC18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AshtianiSRHWMJ18,
  author    = {Minoo Ashtiani and
               Ali Salehzadeh{-}Yazdi and
               Zahra Razaghi{-}Moghadam and
               Holger Hennig and
               Olaf Wolkenhauer and
               Mehdi Mirzaie and
               Mohieddin Jafari},
  title     = {A systematic survey of centrality measures for protein-protein interaction
               networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {80:1--80:17},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0598-2},
  doi       = {10.1186/s12918-018-0598-2},
  timestamp = {Sat, 30 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AshtianiSRHWMJ18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BelorkarVW18,
  author    = {Abha Belorkar and
               Rajanikanth Vadigepalli and
               Limsoon Wong},
  title     = {SPSNet: subpopulation-sensitive network-based analysis of heterogeneous
               gene expression data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {{S-2}},
  pages     = {93--108},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0538-1},
  doi       = {10.1186/s12918-018-0538-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BelorkarVW18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BuigaETS18,
  author    = {Petronela Buiga and
               Ari Elson and
               Lydia Tabernero and
               Jean{-}Marc Schwartz},
  title     = {Regulation of dual specificity phosphatases in breast cancer during
               initial treatment with Herceptin: a Boolean model analysis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {13--24},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0534-5},
  doi       = {10.1186/s12918-018-0534-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BuigaETS18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CaoWLZQ18,
  author    = {Yan{-}feng Cao and
               Shi{-}feng Wang and
               Xi Li and
               Yan{-}ling Zhang and
               Yanjiang Qiao},
  title     = {The anticancer mechanism investigation of Tanshinone {IIA} by pharmacological
               clustering in protein network},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {90:1--90:12},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0606-6},
  doi       = {10.1186/s12918-018-0606-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CaoWLZQ18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CasagrandaTRG18,
  author    = {Stefano Casagranda and
               Suzanne Touzeau and
               Delphine Ropers and
               Jean{-}Luc Gouz{\'{e}}},
  title     = {Principal process analysis of biological models},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {68:1--68:26},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0586-6},
  doi       = {10.1186/s12918-018-0586-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CasagrandaTRG18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChooBJC18,
  author    = {Sang{-}Mok Choo and
               Byunghyun Ban and
               Jae Il Joo and
               Kwang{-}Hyun Cho},
  title     = {The phenotype control kernel of a biomolecular regulatory network},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {49:1--49:15},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0576-8},
  doi       = {10.1186/s12918-018-0576-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChooBJC18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CogillSYW18,
  author    = {Steven B. Cogill and
               Anand K. Srivastava and
               Mary Qu Yang and
               Liangjiang Wang},
  title     = {Co-expression of long non-coding RNAs and autism risk genes in the
               developing human brain},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {7},
  pages     = {65--73},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0639-x},
  doi       = {10.1186/s12918-018-0639-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CogillSYW18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ConradKHKMVGJBV18,
  author    = {Theresia Conrad and
               Olaf Kniemeyer and
               Sebastian Henkel and
               T. Kr{\"{u}}ger and
               D. J. Mattern and
               V. Valiante and
               R. Guthke and
               I. D. Jacobsen and
               A. A. Brakhage and
               S. Vlaic and
               J. Linde},
  title     = {Module-detection approaches for the integration of multilevel omics
               data highlight the comprehensive response of Aspergillus fumigatus
               to caspofungin},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {88:1--88:18},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0620-8},
  doi       = {10.1186/s12918-018-0620-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ConradKHKMVGJBV18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CookAHOV18,
  author    = {Daniel Cook and
               Sirisha Achanta and
               Jan B. Hoek and
               Babatunde A. Ogunnaike and
               Rajanikanth Vadigepalli},
  title     = {Cellular network modeling and single cell gene expression analysis
               reveals novel hepatic stellate cell phenotypes controlling liver regeneration
               dynamics},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {86:1--86:29},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0605-7},
  doi       = {10.1186/s12918-018-0605-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CookAHOV18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CuiY18,
  author    = {Fangshu Cui and
               Bo Yuan},
  title     = {Fixation probability of a beneficial mutation conferring decreased
               generation time in changing environments},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {4},
  pages     = {157--166},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0575-9},
  doi       = {10.1186/s12918-018-0575-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CuiY18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/DaiLLLL18,
  author    = {Wentao Dai and
               Quanxue Li and
               Bing{-}Ya Liu and
               Yi{-}Xue Li and
               Yuan{-}Yuan Li},
  title     = {Differential networking meta-analysis of gastric cancer across Asian
               and American racial groups},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {4},
  pages     = {17--28},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0564-z},
  doi       = {10.1186/s12918-018-0564-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/DaiLLLL18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/DimitrovaCLS18,
  author    = {Elena S. Dimitrova and
               Leslie A. Caromile and
               Reinhard C. Laubenbacher and
               Linda H. Shapiro},
  title     = {The innate immune response to ischemic injury: a multiscale modeling
               perspective},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {50:1--50:13},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0580-z},
  doi       = {10.1186/s12918-018-0580-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/DimitrovaCLS18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FangMMDSKSSP18,
  author    = {Xin Fang and
               Jonathan M. Monk and
               Nathan Mih and
               Bin Du and
               Anand Sastry and
               Erol S. Kavvas and
               Yara Seif and
               Larry Smarr and
               Bernhard O. Palsson},
  title     = {Escherichia coli {B2} strains prevalent in inflammatory bowel disease
               patients have distinct metabolic capabilities that enable colonization
               of intestinal mucosa},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {66:1--66:10},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0587-5},
  doi       = {10.1186/s12918-018-0587-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FangMMDSKSSP18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Folch-FortunyTH18,
  author    = {Abel Folch{-}Fortuny and
               Bas Teusink and
               Huub C. J. Hoefsloot and
               Age K. Smilde and
               Alberto Ferrer},
  title     = {Dynamic elementary mode modelling of non-steady state flux data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {71:1--71:15},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0589-3},
  doi       = {10.1186/s12918-018-0589-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Folch-FortunyTH18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FroysaFB18,
  author    = {H{\aa}vard G. Fr{\o}ysa and
               Shirin Fallahi and
               Nello Blaser},
  title     = {Evaluating model reduction under parameter uncertainty},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {79:1--79:10},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0602-x},
  doi       = {10.1186/s12918-018-0602-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FroysaFB18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FuWHLJOZG18,
  author    = {Min Fu and
               Wenming Wu and
               Xiafei Hong and
               Qiuhua Liu and
               Jialin Jiang and
               Yaobin Ou and
               Yupei Zhao and
               Xinqi Gong},
  title     = {Hierarchical combinatorial deep learning architecture for pancreas
               segmentation of medical computed tomography cancer images},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {4},
  pages     = {119--127},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0572-z},
  doi       = {10.1186/s12918-018-0572-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FuWHLJOZG18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GongDMWHWBGG18,
  author    = {Ping Gong and
               Keri B. Donohue and
               Anne M. Mayo and
               Yuping Wang and
               Huixiao Hong and
               Mitchell S. Wilbanks and
               Natalie D. Barker and
               Xin Guan and
               Kurt A. Gust},
  title     = {Comparative toxicogenomics of three insensitive munitions constituents
               2, 4-dinitroanisole, nitroguanidine and nitrotriazolone in the soil
               nematode Caenorhabditis elegans},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {7},
  pages     = {31--46},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0636-0},
  doi       = {10.1186/s12918-018-0636-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GongDMWHWBGG18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Gonzalez-Menendez18,
  author    = {V{\'{\i}}ctor Gonz{\'{a}}lez{-}Men{\'{e}}ndez and
               Germ{\'{a}}n Mart{\'{\i}}nez and
               Rachel Serrano and
               Francisca Mu{\~{n}}oz and
               Jes{\'{u}}s Mart{\'{\i}}n and
               Olga Genilloud and
               Jos{\'{e}} R. Tormo},
  title     = {Ultraviolet {(IUV)} and mass spectrometry {(IMS)} imaging for the
               deconvolution of microbial interactions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {5},
  pages     = {91--97},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0617-3},
  doi       = {10.1186/s12918-018-0617-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Gonzalez-Menendez18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GuoLHWYYFJD18,
  author    = {Mengjie Guo and
               Sicheng Lu and
               Hongming Huang and
               Yaohui Wang and
               Mary Qu Yang and
               Ye Yang and
               Zhimin Fan and
               Bin Jiang and
               Youping Deng},
  title     = {Increased {AURKA} promotes cell proliferation and predicts poor prognosis
               in bladder cancer},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {7},
  pages     = {11--17},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0634-2},
  doi       = {10.1186/s12918-018-0634-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GuoLHWYYFJD18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GuyeuxAACS18,
  author    = {Christophe Guyeux and
               Bashar Al{-}Nuaimi and
               Bassam AlKindy and
               Jean{-}Fran{\c{c}}ois Couchot and
               Michel Salomon},
  title     = {On the reconstruction of the ancestral bacterial genomes in genus
               Mycobacterium and Brucella},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {5},
  pages     = {99--121},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0618-2},
  doi       = {10.1186/s12918-018-0618-2},
  timestamp = {Sat, 05 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GuyeuxAACS18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GuzmanOHPCCMPF18,
  author    = {Gabriela I. Guzm{\'{a}}n and
               Connor A. Olson and
               Ying Hefner and
               Patrick V. Phaneuf and
               Edward Catoiu and
               Lais B. Crepaldi and
               Lucas Goldschmidt Micas and
               Bernhard O. Palsson and
               Adam M. Feist},
  title     = {Reframing gene essentiality in terms of adaptive flexibility},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {143:1--143:20},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0653-z},
  doi       = {10.1186/s12918-018-0653-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GuzmanOHPCCMPF18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Hall-SwanCNC18a,
  title     = {Retraction Note: detangling {PPI} networks to uncover functionally
               meaningful clusters},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {113:1},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0641-3},
  doi       = {10.1186/s12918-018-0641-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Hall-SwanCNC18a.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HaridasBMMS18,
  author    = {Parvathi Haridas and
               Alexander P. Browning and
               Jacqui A. McGovern and
               D. L. Sean McElwain and
               Matthew J. Simpson},
  title     = {Three-dimensional experiments and individual based simulations show
               that cell proliferation drives melanoma nest formation in human skin
               tissue},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {34:1--34:15},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0559-9},
  doi       = {10.1186/s12918-018-0559-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HaridasBMMS18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HeJDZ18,
  author    = {Wenying He and
               Cangzhi Jia and
               Yucong Duan and
               Quan Zou},
  title     = {70ProPred: a predictor for discovering sigma70 promoters based on
               combining multiple features},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {4},
  pages     = {99--107},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0570-1},
  doi       = {10.1186/s12918-018-0570-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HeJDZ18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HeLCYLYG18,
  author    = {Guannan He and
               Yanchun Liang and
               Yan Chen and
               William Yang and
               Jun S. Liu and
               Mary Qu Yang and
               Renchu Guan},
  title     = {A hotspots analysis-relation discovery representation model for revealing
               diabetes mellitus and obesity},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {7},
  pages     = {75--85},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0640-4},
  doi       = {10.1186/s12918-018-0640-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HeLCYLYG18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Hernansaiz-Ballesteros18,
  author    = {Rosa D. Hernansaiz{-}Ballesteros and
               Luca Cardelli and
               Attila Csik{\'{a}}sz{-}Nagy},
  title     = {Single molecules can operate as primitive biological sensors, switches
               and oscillators},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {70:1--70:14},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0596-4},
  doi       = {10.1186/s12918-018-0596-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Hernansaiz-Ballesteros18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HidalgoEAG18,
  author    = {Jos{\'{e}} F. Hidalgo and
               Jose A. Egea and
               Francisco De As{\'{\i}}s Guil Asensio and
               Jos{\'{e}} M. Garc{\'{\i}}a},
  title     = {Improving the EFMs quality by augmenting their representativeness
               in {LP} methods},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {5},
  pages     = {123--131},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0619-1},
  doi       = {10.1186/s12918-018-0619-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HidalgoEAG18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HongPKCMKJY18,
  author    = {Yourae Hong and
               Choa Park and
               Nayoung Kim and
               Juyeon Cho and
               Sung Ung Moon and
               Jongmin Kim and
               Euna Jeong and
               Sukjoon Yoon},
  title     = {QSurface: fast identification of surface expression markers in cancers},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {{S-2}},
  pages     = {1--8},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0541-6},
  doi       = {10.1186/s12918-018-0541-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HongPKCMKJY18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HuGZS18,
  author    = {Jialu Hu and
               Yiqun Gao and
               Yan Zheng and
               Xuequn Shang},
  title     = {KF-finder: identification of key factors from host-microbial networks
               in cervical cancer},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {4},
  pages     = {41--48},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0566-x},
  doi       = {10.1186/s12918-018-0566-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HuGZS18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HuZYGYZHSYYMCDH18,
  author    = {Ling Hu and
               Rong Zhang and
               Qiong Yuan and
               Yinping Gao and
               Mary Qu Yang and
               Chunxiang Zhang and
               Jiankun Huang and
               Yufei Sun and
               William Yang and
               Jack Y. Yang and
               Zhen{-}li Min and
               Jing Cheng and
               Youping Deng and
               Xiamin Hu},
  title     = {The emerging role of microRNA-4487/6845-3p in Alzheimer's disease
               pathologies is induced by A{\(\beta\)}25-35 triggered in {SH-SY5Y}
               cell},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {7},
  pages     = {119:1--119:10},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0633-3},
  doi       = {10.1186/s12918-018-0633-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HuZYGYZHSYYMCDH18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HuangJFLOL18,
  author    = {Bin Huang and
               Dongya Jia and
               Jingchen Feng and
               Herbert Levine and
               Jos{\'{e}} N. Onuchic and
               Mingyang Lu},
  title     = {{RACIPE:} a computational tool for modeling gene regulatory circuits
               using randomization},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {74:1--74:12},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0594-6},
  doi       = {10.1186/s12918-018-0594-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HuangJFLOL18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HuangLLTY18,
  author    = {Sing{-}Han Huang and
               Yu{-}Shu Lo and
               Yong{-}Chun Luo and
               Yu{-}Yao Tseng and
               Jinn{-}Moon Yang},
  title     = {A homologous mapping method for three-dimensional reconstruction of
               protein networks reveals disease-associated mutations},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {{S-2}},
  pages     = {79--91},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0537-2},
  doi       = {10.1186/s12918-018-0537-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HuangLLTY18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HungHPHTWC18,
  author    = {Kuo{-}Sheng Hung and
               Chung{-}Chi Hsiao and
               Tun{-}Wen Pai and
               Chin{-}Hwa Hu and
               Wen{-}Shyong Tzou and
               Wen{-}Der Wang and
               Yet{-}Ran Chen},
  title     = {Functional enrichment analysis based on long noncoding {RNA} associations},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {4},
  pages     = {109--118},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0571-0},
  doi       = {10.1186/s12918-018-0571-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HungHPHTWC18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JeonKPLK18,
  author    = {Minji Jeon and
               Sunkyu Kim and
               Sungjoon Park and
               Heewon Lee and
               Jaewoo Kang},
  title     = {In silico drug combination discovery for personalized cancer therapy},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {{S-2}},
  pages     = {59--67},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0546-1},
  doi       = {10.1186/s12918-018-0546-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JeonKPLK18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JiaoLW18,
  author    = {Jianfeng Jiao and
               Min Luo and
               Ruiqi Wang},
  title     = {Feedback regulation in a stem cell model with acute myeloid leukaemia},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {4},
  pages     = {75--83},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0561-2},
  doi       = {10.1186/s12918-018-0561-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JiaoLW18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JungKBYL18,
  author    = {Jinmyung Jung and
               Mijin Kwon and
               Sunghwa Bae and
               Soorin Yim and
               Doheon Lee},
  title     = {Petri net-based prediction of therapeutic targets that recover abnormally
               phosphorylated proteins in muscle atrophy},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {26:1--26:11},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0555-0},
  doi       = {10.1186/s12918-018-0555-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JungKBYL18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JungKKCKJ18,
  author    = {Inuk Jung and
               Hyejin Kang and
               Jang Uk Kim and
               Hyeonsook Chang and
               Sun Kim and
               Woosuk Jung},
  title     = {The mRNA and miRNA transcriptomic landscape of Panax ginseng under
               the high ambient temperature},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {{S-2}},
  pages     = {117--130},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0548-z},
  doi       = {10.1186/s12918-018-0548-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JungKKCKJ18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KarpWL18,
  author    = {Peter D. Karp and
               Daniel S. Weaver and
               Mario Latendresse},
  title     = {How accurate is automated gap filling of metabolic models?},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {73:1--73:11},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0593-7},
  doi       = {10.1186/s12918-018-0593-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KarpWL18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KavvasSYNPGGPM18,
  author    = {Erol S. Kavvas and
               Yara Seif and
               James T. Yurkovich and
               Charles Norsigian and
               Saugat Poudel and
               William W. Greenwald and
               Sankha Ghatak and
               Bernhard O. Palsson and
               Jonathan M. Monk},
  title     = {Updated and standardized genome-scale reconstruction of Mycobacterium
               tuberculosis H37Rv, iEK1011, simulates flux states indicative of physiological
               conditions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {25:1--25:15},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0557-y},
  doi       = {10.1186/s12918-018-0557-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KavvasSYNPGGPM18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KhanAJLKCW18,
  author    = {Abbas Khan and
               Arif Ali and
               Muhammad Junaid and
               Chang Liu and
               Aman Chandra Kaushik and
               William C. S. Cho and
               Dong{-}Qing Wei},
  title     = {Identification of novel drug targets for diamond-blackfan anemia based
               on {RPS19} gene mutation using protein-protein interaction network},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {4},
  pages     = {5--16},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0563-0},
  doi       = {10.1186/s12918-018-0563-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KhanAJLKCW18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KramerJZ18,
  author    = {Frank Kramer and
               Steffen Just and
               Tanja Zeller},
  title     = {New perspectives: systems medicine in cardiovascular disease},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {57:1--57:13},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0579-5},
  doi       = {10.1186/s12918-018-0579-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KramerJZ18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KremlingGRJ18,
  author    = {Andreas Kremling and
               Johannes Geiselmann and
               Delphine Ropers and
               Hidde de Jong},
  title     = {An ensemble of mathematical models showing diauxic growth behaviour},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {82:1--82:16},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0604-8},
  doi       = {10.1186/s12918-018-0604-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KremlingGRJ18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KwonLYP18,
  author    = {Min{-}Seok Kwon and
               Sangseob Leem and
               Joon Yoon and
               Taesung Park},
  title     = {GxGrare: gene-gene interaction analysis method for rare variants from
               high-throughput sequencing data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {{S-2}},
  pages     = {21--31},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0543-4},
  doi       = {10.1186/s12918-018-0543-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KwonLYP18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LegeayARD18,
  author    = {Marc Legeay and
               S{\'{e}}bastien Aubourg and
               Jean{-}Pierre Renou and
               B{\'{e}}atrice Duval},
  title     = {Large scale study of anti-sense regulation by differential network
               analysis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {5},
  pages     = {27--41},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0613-7},
  doi       = {10.1186/s12918-018-0613-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LegeayARD18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LeiFWC18,
  author    = {Xiujuan Lei and
               Ming Fang and
               Fang{-}Xiang Wu and
               Luonan Chen},
  title     = {Improved flower pollination algorithm for identifying essential proteins},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {4},
  pages     = {129--140},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0573-y},
  doi       = {10.1186/s12918-018-0573-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LeiFWC18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiHB18,
  author    = {Limin Li and
               Xiao He and
               Karsten M. Borgwardt},
  title     = {Multi-target drug repositioning by bipartite block-wise sparse multi-task
               learning},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {4},
  pages     = {85--97},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0569-7},
  doi       = {10.1186/s12918-018-0569-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiHB18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiYALCY18,
  author    = {Dan Li and
               William Yang and
               Carolyn Arthur and
               Jun S. Liu and
               Carolina Cruz{-}Niera and
               Mary Qu Yang},
  title     = {Systems biology analysis reveals new insights into invasive lung cancer},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {7},
  pages     = {47--53},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0637-z},
  doi       = {10.1186/s12918-018-0637-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiYALCY18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiZN18,
  author    = {Chunhe Li and
               Lei Zhang and
               Qing Nie},
  title     = {Landscape reveals critical network structures for sharpening gene
               expression boundaries},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {67:1--67:13},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0595-5},
  doi       = {10.1186/s12918-018-0595-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiZN18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuBAZFCZ18,
  author    = {Guan{-}Sheng Liu and
               Richard Ballweg and
               Alan Ashbaugh and
               Yin Zhang and
               Joseph Facciolo and
               Melanie T. Cushion and
               Tongli Zhang},
  title     = {A quantitative systems pharmacology {(QSP)} model for Pneumocystis
               treatment in mice},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {77:1--77:12},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0603-9},
  doi       = {10.1186/s12918-018-0603-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuBAZFCZ18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuCHS18,
  author    = {Fei Liu and
               Siyuan Chen and
               Monika Heiner and
               Hengjie Song},
  title     = {Modeling biological systems with uncertain kinetic data using fuzzy
               continuous Petri nets},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {4},
  pages     = {63--74},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0568-8},
  doi       = {10.1186/s12918-018-0568-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuCHS18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuCWZL18,
  author    = {Quanya Liu and
               Peng Chen and
               Bing Wang and
               Jun Zhang and
               Jinyan Li},
  title     = {Hot spot prediction in protein-protein interactions by an ensemble
               system},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {9},
  pages     = {132},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0665-8},
  doi       = {10.1186/s12918-018-0665-8},
  timestamp = {Sat, 30 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuCWZL18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuHCLCCL18,
  author    = {Fang{-}Yu Liu and
               Te{-}Cheng Hsu and
               Patrick Choong and
               Min{-}Hsuan Lin and
               Yung{-}Jen Chuang and
               Bor{-}Sen Chen and
               Che Lin},
  title     = {Uncovering the regeneration strategies of zebrafish organs: a comprehensive
               systems biology study on heart, cerebellum, fin, and retina regeneration},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {{S-2}},
  pages     = {33--46},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0544-3},
  doi       = {10.1186/s12918-018-0544-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuHCLCCL18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LuoSA18,
  author    = {Xinyue Luo and
               Ruijie Song and
               Murat Acar},
  title     = {Multi-component gene network design as a survival strategy in diverse
               environments},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {85:1--85:11},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0609-3},
  doi       = {10.1186/s12918-018-0609-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LuoSA18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LyuCJDFL18,
  author    = {Mengxuan Lyu and
               Jiaxing Chen and
               Yiqi Jiang and
               Wei Dong and
               Zhou Fang and
               Shuai Cheng Li},
  title     = {KDiamend: a package for detecting key drivers in a molecular ecological
               network of disease},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {89--99},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0531-8},
  doi       = {10.1186/s12918-018-0531-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LyuCJDFL18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MartinezRMFLRGB18,
  author    = {Juan A. Mart{\'{\i}}nez and
               Alberto Rodriguez and
               Fabian Moreno and
               Noem{\'{\i}} Flores and
               Alvaro R. Lara and
               Octavio T. Ram{\'{\i}}rez and
               Guillermo Gosset and
               Francisco Bolivar},
  title     = {Metabolic modeling and response surface analysis of an Escherichia
               coli strain engineered for shikimic acid production},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {102:1--102:26},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0632-4},
  doi       = {10.1186/s12918-018-0632-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MartinezRMFLRGB18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/McNallyB18,
  author    = {Colin P. McNally and
               Elhanan Borenstein},
  title     = {Metabolic model-based analysis of the emergence of bacterial cross-feeding
               via extensive gene loss},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {69:1--69:14},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0588-4},
  doi       = {10.1186/s12918-018-0588-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/McNallyB18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MessinaFPRU18,
  author    = {Antonio Messina and
               Antonino Fiannaca and
               Laura La Paglia and
               Massimo La Rosa and
               Alfonso Urso},
  title     = {BioGraph: a web application and a graph database for querying and
               analyzing bioinformatics resources},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {5},
  pages     = {75--89},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0616-4},
  doi       = {10.1186/s12918-018-0616-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MessinaFPRU18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MeulderLBMCABSP18,
  author    = {Bertrand De Meulder and
               Diane Lefaudeux and
               Aruna T. Bansal and
               Alexander Mazein and
               Amphun Chaiboonchoe and
               Hassan Ahmed and
               Irina Balaur and
               Mansoor Saqi and
               Johann Pellet and
               St{\'{e}}phane Ballereau and
               Nathana{\"{e}}l Lemonnier and
               Kai Sun and
               Ioannis Pandis and
               Xian Yang and
               Manohara Batuwitage and
               Kosmas Kretsos and
               Jonathan van Eyll and
               Alun Bedding and
               Timothy Davison and
               Paul Dodson and
               Christopher Larminie and
               Anthony Postle and
               Julie Corfield and
               Ratko Djukanovic and
               Kian Fan Chung and
               Ian M. Adcock and
               Yike Guo and
               Peter J. Sterk and
               Alexander Manta and
               Anthony Rowe and
               Fr{\'{e}}d{\'{e}}ric Baribaud and
               Charles Auffray},
  title     = {A computational framework for complex disease stratification from
               multiple large-scale datasets},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {60:1--60:23},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0556-z},
  doi       = {10.1186/s12918-018-0556-z},
  timestamp = {Sat, 29 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MeulderLBMCABSP18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MiannayMMG18,
  author    = {Bertrand Miannay and
               St{\'{e}}phane Minvielle and
               Florence Magrangeas and
               Carito Guziolowski},
  title     = {Constraints on signaling network logic reveal functional subgraphs
               on Multiple Myeloma {OMIC} data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {3},
  pages     = {25--37},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0551-4},
  doi       = {10.1186/s12918-018-0551-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MiannayMMG18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MishraLLKKL18,
  author    = {Pranjul Mishra and
               Na{-}Rae Lee and
               Meiyappan Lakshmanan and
               Minsuk Kim and
               Byung{-}Gee Kim and
               Dong{-}Yup Lee},
  title     = {Genome-scale model-driven strain design for dicarboxylic acid production
               in Yarrowia lipolytica},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {{S-2}},
  pages     = {9--20},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0542-5},
  doi       = {10.1186/s12918-018-0542-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MishraLLKKL18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MoriMYYK18,
  author    = {Hiroshi Mori and
               Takayuki Maruyama and
               Masahiro Yano and
               Takuji Yamada and
               Ken Kurokawa},
  title     = {{VITCOMIC2:} visualization tool for the phylogenetic composition of
               microbial communities based on 16S rRNA gene amplicons and metagenomic
               shotgun sequencing},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {{S-2}},
  pages     = {47--58},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0545-2},
  doi       = {10.1186/s12918-018-0545-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MoriMYYK18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MoriNHAN18,
  author    = {Takuya Mori and
               Hayliang Ngouv and
               Morihiro Hayashida and
               Tatsuya Akutsu and
               Jose C. Nacher},
  title     = {ncRNA-disease association prediction based on sequence information
               and tripartite network},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {41--51},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0527-4},
  doi       = {10.1186/s12918-018-0527-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MoriNHAN18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MukherjeeHBK18,
  author    = {Kingshuk Mukherjee and
               Md Mahmudul Hasan and
               Christina Boucher and
               Tamer Kahveci},
  title     = {Counting motifs in dynamic networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {1--12},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0533-6},
  doi       = {10.1186/s12918-018-0533-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MukherjeeHBK18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/NeumannWRMR18,
  author    = {G{\"{u}}nter Neumann and
               Rebecca Wall and
               Ignacio Rangel and
               Tatiana M. Marques and
               Dirk Repsilber},
  title     = {Qualitative modelling of the interplay of inflammatory status and
               butyrate in the human gut: a hypotheses about robust bi-stability},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {144:1--144:11},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0667-6},
  doi       = {10.1186/s12918-018-0667-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/NeumannWRMR18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/OlneyNVSH18,
  author    = {Kimberly C. Olney and
               David B. Nyer and
               Daniel A. Vargas and
               Melissa A. Wilson Sayres and
               Karmella A. Haynes},
  title     = {The synthetic histone-binding regulator protein PcTF activates interferon
               genes in breast cancer cells},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {83:1--83:17},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0608-4},
  doi       = {10.1186/s12918-018-0608-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/OlneyNVSH18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/OrdinelliBOMB18,
  author    = {Alessandra Ordinelli and
               Nicola Bernab{\`{o}} and
               Massimiliano Orsini and
               Mauro Mattioli and
               Barbara Barboni},
  title     = {Putative human sperm Interactome: a networks study},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {52:1--52:10},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0578-6},
  doi       = {10.1186/s12918-018-0578-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/OrdinelliBOMB18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PapacekJP18,
  author    = {Step{\'{a}}n Pap{\'{a}}cek and
               Jiri Jablonsky and
               Karel Petera},
  title     = {Advanced integration of fluid dynamics and photosynthetic reaction
               kinetics for microalgae culture systems},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {5},
  pages     = {93:1--93:12},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0611-9},
  doi       = {10.1186/s12918-018-0611-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PapacekJP18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ParkKSHJJJK18,
  author    = {Sungjoon Park and
               Jung Min Kim and
               Won{-}Ho Shin and
               Sung Won Han and
               Minji Jeon and
               Hyun Jin Jang and
               Ik{-}Soon Jang and
               Jaewoo Kang},
  title     = {{BTNET} : boosted tree based gene regulatory network inference algorithm
               using time-course measurement data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {{S-2}},
  pages     = {69--77},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0547-0},
  doi       = {10.1186/s12918-018-0547-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ParkKSHJJJK18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PengZHLLLS18,
  author    = {Jiajie Peng and
               Xuanshuo Zhang and
               Weiwei Hui and
               Junya Lu and
               Qianqian Li and
               Shuhui Liu and
               Xuequn Shang},
  title     = {Improving the measurement of semantic similarity by combining gene
               ontology and co-functional network: a random walk based approach},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {{S-2}},
  pages     = {109--116},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0539-0},
  doi       = {10.1186/s12918-018-0539-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PengZHLLLS18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PereiraMVSRC18,
  author    = {Bruno Pereira and
               Joana Miguel and
               Paulo Vila{\c{c}}a and
               Sim{\~{a}}o Soares and
               Isabel Rocha and
               S{\'{o}}nia Carneiro},
  title     = {Reconstruction of a genome-scale metabolic model for Actinobacillus
               succinogenes 130Z},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {61:1--61:12},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0585-7},
  doi       = {10.1186/s12918-018-0585-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PereiraMVSRC18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PrestonWRSEF18,
  author    = {Claudia C. Preston and
               Saranya Wyles and
               Santiago Reyes and
               Emily C. Storm and
               Bruce W. Eckloff and
               Randolph Faustino},
  title     = {{NUP155} insufficiency recalibrates a pluripotent transcriptome with
               network remodeling of a cardiogenic signaling module},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {62:1--62:13},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0590-x},
  doi       = {10.1186/s12918-018-0590-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PrestonWRSEF18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/QiuJCC18,
  author    = {Yushan Qiu and
               Hao Jiang and
               Wai{-}Ki Ching and
               Xiaoqing Cheng},
  title     = {Discovery of Boolean metabolic networks: integer linear programming
               based approach},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {53--60},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0528-3},
  doi       = {10.1186/s12918-018-0528-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/QiuJCC18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RanjanCZ18,
  author    = {Bobby Ranjan and
               Ket Hing Chong and
               Jie Zheng},
  title     = {Composite mathematical modeling of calcium signaling behind neuronal
               cell death in Alzheimer's disease},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {61--74},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0529-2},
  doi       = {10.1186/s12918-018-0529-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RanjanCZ18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RossBWC18,
  author    = {Brian C. Ross and
               Mayla Boguslav and
               Holly Weeks and
               James C. Costello},
  title     = {Simulating heterogeneous populations using Boolean models},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {64:1--64:11},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0591-9},
  doi       = {10.1186/s12918-018-0591-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RossBWC18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RowePK18,
  author    = {Elliot Rowe and
               Bernhard O. Palsson and
               Zachary A. King},
  title     = {Escher-FBA: a web application for interactive flux balance analysis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {84:1--84:7},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0607-5},
  doi       = {10.1186/s12918-018-0607-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RowePK18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RowlandWWGM18,
  author    = {Michael A. Rowland and
               Hannah Wear and
               Karen H. Watanabe and
               Kurt A. Gust and
               Michael L. Mayo},
  title     = {Statistical relationship between metabolic decomposition and chemical
               uptake predicts bioconcentration factor data for diverse chemical
               exposures},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {81:1--81:12},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0601-y},
  doi       = {10.1186/s12918-018-0601-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RowlandWWGM18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RucciGBGNP18,
  author    = {Enzo Rucci and
               Carlos Garc{\'{\i}}a and
               Guillermo Botella and
               Armando De Giusti and
               Marcelo R. Naiouf and
               Manuel Prieto},
  title     = {{SWIFOLD:} Smith-Waterman implementation on {FPGA} with OpenCL for
               long {DNA} sequences},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {5},
  pages     = {43--53},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0614-6},
  doi       = {10.1186/s12918-018-0614-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RucciGBGNP18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Sadre-MarandiDR18,
  author    = {Farrah Sadre{-}Marandi and
               Thabat Dahdoul and
               Michael C. Reed and
               H. Frederik Nijhout},
  title     = {Sex differences in hepatic one-carbon metabolism},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {89:1--89:13},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0621-7},
  doi       = {10.1186/s12918-018-0621-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Sadre-MarandiDR18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SaeedABPSPHA18,
  author    = {Muhammad Tariq Saeed and
               Jamil Ahmad and
               Jan Baumbach and
               Josch Pauling and
               Aamir Shafi and
               Rehan Zafar Paracha and
               Asad Hayat and
               Amjad Ali},
  title     = {Parameter estimation of qualitative biological regulatory networks
               on high performance computing hardware},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {146:1--146:15},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0670-y},
  doi       = {10.1186/s12918-018-0670-y},
  timestamp = {Thu, 27 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SaeedABPSPHA18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SagarLSV18,
  author    = {Adithya Sagar and
               Rachel LeCover and
               Christine Shoemaker and
               Jeffrey D. Varner},
  title     = {Dynamic Optimization with Particle Swarms {(DOPS):} a meta-heuristic
               for parameter estimation in biochemical models},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {87:1--87:15},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0610-x},
  doi       = {10.1186/s12918-018-0610-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SagarLSV18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ScharmGTBSWW18,
  author    = {Martin Scharm and
               Tom Gebhardt and
               Vasundra Tour{\'{e}} and
               Andrea Bagnacani and
               Ali Salehzadeh{-}Yazdi and
               Olaf Wolkenhauer and
               Dagmar Waltemath},
  title     = {Evolution of computational models in BioModels Database and the Physiome
               Model Repository},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {53:1--53:10},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0553-2},
  doi       = {10.1186/s12918-018-0553-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ScharmGTBSWW18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SedghamizMCWB18,
  author    = {Hooman Sedghamiz and
               Matthew Morris and
               Travis J. A. Craddock and
               L. Darrell Whitley and
               Gordon Broderick},
  title     = {High-fidelity discrete modeling of the {HPA} axis: a study of regulatory
               plasticity in biology},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {76:1--76:16},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0599-1},
  doi       = {10.1186/s12918-018-0599-1},
  timestamp = {Sat, 30 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SedghamizMCWB18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ShahenGSETZWBFZ18,
  author    = {Mohamed Shahen and
               Zihu Guo and
               Akhtar Hussain Shar and
               Reham Ebaid and
               Qin Tao and
               Wenjuan Zhang and
               Ziyin Wu and
               Yaofei Bai and
               Yingxue Fu and
               Chunli Zheng and
               He Wang and
               Piar Ali Shar and
               Jianling Liu and
               Zhenzhong Wang and
               Wei Xiao and
               Yonghua Wang},
  title     = {Dengue virus causes changes of MicroRNA-genes regulatory network revealing
               potential targets for antiviral drugs},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {2:1--2:13},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-017-0518-x},
  doi       = {10.1186/s12918-017-0518-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ShahenGSETZWBFZ18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ShahenGSETZWBFZ18a,
  author    = {Mohamed Shahen and
               Zihu Guo and
               Akhtar Hussain Shar and
               Reham Ebaid and
               Qin Tao and
               Wenjuan Zhang and
               Ziyin Wu and
               Yaofei Bai and
               Yingxue Fu and
               Chunli Zheng and
               He Wang and
               Piar Ali Shar and
               Jianling Liu and
               Zhenzhong Wang and
               Wei Xiao and
               Yonghua Wang},
  title     = {Correction to: dengue virus causes changes of MicroRNA-genes regulatory
               network revealing potential targets for antiviral drugs},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {21:1},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0536-3},
  doi       = {10.1186/s12918-018-0536-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ShahenGSETZWBFZ18a.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ShenWSZCQWL18,
  author    = {Fangzhou Shen and
               Xueting Wu and
               Luoxi Shi and
               Hang Zhang and
               Yangmin Chen and
               Xiaoquan Qi and
               Zhuo Wang and
               Xuan Li},
  title     = {Transcriptomic and metabolic flux analyses reveal shift of metabolic
               patterns during rice grain development},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {4},
  pages     = {141--156},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0574-x},
  doi       = {10.1186/s12918-018-0574-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ShenWSZCQWL18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SmithRSF18,
  author    = {Robert W. Smith and
               Rik P. van Rosmalen and
               V{\'{\i}}tor A. P. Martins dos Santos and
               Christian Fleck},
  title     = {DMPy: a Python package for automated mathematical model construction
               of large-scale metabolic systems},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {72:1--72:16},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0584-8},
  doi       = {10.1186/s12918-018-0584-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SmithRSF18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SongF18,
  author    = {Min Song and
               Stacey D. Finley},
  title     = {Mechanistic insight into activation of {MAPK} signaling by pro-angiogenic
               factors},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {145:1--145:17},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0668-5},
  doi       = {10.1186/s12918-018-0668-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SongF18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/StromeHMZBM18,
  author    = {Bob Strome and
               Ian Shenyen Hsu and
               Mitchell Li Cheong Man and
               Taraneh Zarin and
               Alex N. Nguyen Ba and
               Alan M. Moses},
  title     = {Short linear motifs in intrinsically disordered regions modulate {HOG}
               signaling capacity},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {75:1--75:13},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0597-3},
  doi       = {10.1186/s12918-018-0597-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/StromeHMZBM18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TeraguchiK18,
  author    = {Shunsuke Teraguchi and
               Yutaro Kumagai},
  title     = {Estimation of diffusion constants from single molecular measurement
               without explicit tracking},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {25--39},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0526-5},
  doi       = {10.1186/s12918-018-0526-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TeraguchiK18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ThomasS18,
  author    = {Marcus Thomas and
               Russell Schwartz},
  title     = {A method for efficient Bayesian optimization of self-assembly systems
               from scattering data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {65:1--65:17},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0592-8},
  doi       = {10.1186/s12918-018-0592-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ThomasS18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TianTCG18,
  author    = {Zhen Tian and
               Zhixia Teng and
               Shuang Cheng and
               Maozu Guo},
  title     = {Computational drug repositioning using meta-path-based semantic network
               analysis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {9},
  pages     = {134},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0658-7},
  doi       = {10.1186/s12918-018-0658-7},
  timestamp = {Sat, 30 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TianTCG18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/UrdaABFVCJ18,
  author    = {Daniel Urda and
               Francisco Arag{\'{o}}n and
               Roc{\'{\i}}o Bautista and
               Leonardo Franco and
               Francisco J. Veredas and
               Manuel Gonzalo Claros and
               Jos{\'{e}} Manuel Jerez},
  title     = {{BLASSO:} integration of biological knowledge into a regularized linear
               model},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {5},
  pages     = {13--26},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0612-8},
  doi       = {10.1186/s12918-018-0612-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/UrdaABFVCJ18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ValdesGRDYGRC18,
  author    = {Mar{\'{\i}}a Gabriela Vald{\'{e}}s and
               Iv{\'{a}}n Galv{\'{a}}n{-}Femen{\'{\i}}a and
               Vicent J. Ribas Ripoll and
               Xavier Duran and
               Jun Yokota and
               Ricard Gavald{\`{a}} and
               Xavier Rafael{-}Palou and
               Rafael de Cid},
  title     = {Pipeline design to identify key features and classify the chemotherapy
               response on lung cancer patients using large-scale genetic data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {5},
  pages     = {55--74},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0615-5},
  doi       = {10.1186/s12918-018-0615-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ValdesGRDYGRC18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Vazquez-Hernandez18,
  author    = {Carlos Vazquez{-}Hernandez and
               Antonio Loza and
               Esteban Peguero{-}Sanchez and
               Lorenzo Segovia and
               Rosa{-}Mar{\'{\i}}a Guti{\'{e}}rrez{-}R{\'{\i}}os},
  title     = {Identification of reaction organization patterns that naturally cluster
               enzymatic transformations},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {63:1--63:17},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0583-9},
  doi       = {10.1186/s12918-018-0583-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Vazquez-Hernandez18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/VernonLGRTL18,
  author    = {Ian R. Vernon and
               Junli Liu and
               Michael Goldstein and
               James Rowe and
               Jen Topping and
               Keith Lindsey},
  title     = {Bayesian uncertainty analysis for complex systems biology models:
               emulation, global parameter searches and evaluation of gene functions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {1:1--1:29},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-017-0484-3},
  doi       = {10.1186/s12918-017-0484-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/VernonLGRTL18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WangAMB18,
  author    = {Zhang Wang and
               Seda Arat and
               Michal Magid{-}Slav and
               James R. Brown},
  title     = {Meta-analysis of human gene expression in response to Mycobacterium
               tuberculosis infection reveals potential therapeutic targets},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {3:1--3:18},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-017-0524-z},
  doi       = {10.1186/s12918-017-0524-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WangAMB18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WangYLJCC18,
  author    = {Yan{-}Bin Wang and
               Zhu{-}Hong You and
               Xiao Li and
               Tong{-}Hai Jiang and
               Li Cheng and
               Zhan{-}Heng Chen},
  title     = {Prediction of protein self-interactions using stacked long short-term
               memory from protein sequences information},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {8},
  pages     = {129},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0647-x},
  doi       = {10.1186/s12918-018-0647-x},
  timestamp = {Sat, 30 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WangYLJCC18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WangZC18,
  author    = {Yong Wang and
               Xiang{-}Sun Zhang and
               Luonan Chen},
  title     = {Integrating data- and model-driven strategies in systems biology},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {4},
  pages     = {38:1--38:3},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0562-1},
  doi       = {10.1186/s12918-018-0562-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WangZC18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WoodhousePWGF18,
  author    = {Steven Woodhouse and
               Nir Piterman and
               Christoph M. Wintersteiger and
               Berthold G{\"{o}}ttgens and
               Jasmin Fisher},
  title     = {{SCNS:} a graphical tool for reconstructing executable regulatory
               networks from single-cell genomic data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {59:1--59:7},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0581-y},
  doi       = {10.1186/s12918-018-0581-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WoodhousePWGF18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YangWYZCG18,
  author    = {Mary Qu Yang and
               Sherman Morton Weissman and
               William Yang and
               Jialing Zhang and
               Allon Canaan and
               Renchu Guan},
  title     = {{MISC:} missing imputation for single-cell {RNA} sequencing data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {7},
  pages     = {55--63},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0638-y},
  doi       = {10.1186/s12918-018-0638-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YangWYZCG18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YangWZXZCW18,
  author    = {Fang Yang and
               Meng Wang and
               Baoyun Zhang and
               Wei Xiang and
               Ke Zhang and
               Mingxin Chu and
               Pingqing Wang},
  title     = {Identification of new progestogen-associated networks in mammalian
               ovulation using bioinformatics},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {36:1--36:12},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0577-7},
  doi       = {10.1186/s12918-018-0577-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YangWZXZCW18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YangXMKGZ18,
  author    = {Bei Yang and
               Yaohui Xu and
               Andrew S. Maxwell and
               Wonryull Koh and
               Ping Gong and
               Chaoyang Zhang},
  title     = {{MICRAT:} a novel algorithm for inferring gene regulatory networks
               using time series gene expression data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {7},
  pages     = {19--29},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0635-1},
  doi       = {10.1186/s12918-018-0635-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YangXMKGZ18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YimYJL18,
  author    = {Soorin Yim and
               Hasun Yu and
               Dongjin Jang and
               Doheon Lee},
  title     = {Annotating activation/inhibition relationships to protein-protein
               interactions using gene ontology relations},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {111--122},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0535-4},
  doi       = {10.1186/s12918-018-0535-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YimYJL18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YuMSHCDY18,
  author    = {Hui Yu and
               Kui{-}Tao Mao and
               Jian{-}Yu Shi and
               Hua Huang and
               Zhi Chen and
               Kai Dong and
               Siu{-}Ming Yiu},
  title     = {Predicting and understanding comprehensive drug-drug interactions
               via semi-nonnegative matrix factorization},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {101--110},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0532-7},
  doi       = {10.1186/s12918-018-0532-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YuMSHCDY18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YuNTZ18,
  author    = {Peijia Yu and
               Qing Nie and
               Chao Tang and
               Lei Zhang},
  title     = {Nanog induced intermediate state in regulating stem cell differentiation
               and reprogramming},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {22:1--22:13},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0552-3},
  doi       = {10.1186/s12918-018-0552-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YuNTZ18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YurkovichBSP18,
  author    = {James T. Yurkovich and
               Aarash Bordbar and
               {\'{O}}lafur E. Sigurj{\'{o}}nsson and
               Bernhard O. Palsson},
  title     = {Systems biology as an emerging paradigm in transfusion medicine},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {31:1--31:9},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0558-x},
  doi       = {10.1186/s12918-018-0558-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YurkovichBSP18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZecenaTWFPLSSBT18,
  author    = {Helma Zecena and
               Daniel Tveit and
               Zi Wang and
               Ahmed Farhat and
               Parvita Panchal and
               Jing Liu and
               Simar J. Singh and
               Amandeep Sanghera and
               Ajay Bainiwal and
               Shuan Y. Teo and
               Frank L. Meyskens Jr and
               Feng Liu{-}Smith and
               Fabian V. Filipp},
  title     = {Systems biology analysis of mitogen activated protein kinase inhibitor
               resistance in malignant melanoma},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {33:1--33:12},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0554-1},
  doi       = {10.1186/s12918-018-0554-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZecenaTWFPLSSBT18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Zhang18,
  author    = {Shuqin Zhang},
  title     = {Comparisons of gene coexpression network modules in breast cancer
               and ovarian cancer},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {75--87},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0530-9},
  doi       = {10.1186/s12918-018-0530-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Zhang18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Zhang18a,
  author    = {Qingyang Zhang},
  title     = {A powerful nonparametric method for detecting differentially co-expressed
               genes: distance correlation screening and edge-count test},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {58:1--58:16},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0582-x},
  doi       = {10.1186/s12918-018-0582-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Zhang18a.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhangGZ18,
  author    = {Ke Zhang and
               Wei Geng and
               Shuqin Zhang},
  title     = {Network-based logistic regression integration method for biomarker
               identification},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {9},
  pages     = {135},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0657-8},
  doi       = {10.1186/s12918-018-0657-8},
  timestamp = {Sat, 30 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhangGZ18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhangSTXG18,
  author    = {Zehua Zhang and
               Jian Song and
               Jijun Tang and
               Xinying Xu and
               Fei Guo},
  title     = {Detecting complexes from edge-weighted {PPI} networks via genes expression
               analysis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {4},
  pages     = {29--40},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0565-y},
  doi       = {10.1186/s12918-018-0565-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhangSTXG18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhangYY18,
  author    = {Bo Zhang and
               Hua Ye and
               Aidong Yang},
  title     = {Mathematical modelling of interacting mechanisms for hypoxia mediated
               cell cycle commitment for mesenchymal stromal cells},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {1},
  pages     = {35:1--35:18},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0560-3},
  doi       = {10.1186/s12918-018-0560-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhangYY18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZouAWY18,
  author    = {Xu{-}Dong Zou and
               Ke An and
               Yun{-}Dong Wu and
               Zhi{-}Qiang Ye},
  title     = {{PPI} network analyses of human {WD40} protein family systematically
               reveal their tendency to assemble complexes and facilitate the complex
               predictions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {4},
  pages     = {49--62},
  year      = {2018},
  url       = {https://doi.org/10.1186/s12918-018-0567-9},
  doi       = {10.1186/s12918-018-0567-9},
  timestamp = {Sat, 05 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZouAWY18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Hall-SwanCNC18,
  title     = {Detangling {PPI} networks to uncover functionally meaningful clusters},
  journal   = {{BMC} Syst. Biol.},
  volume    = {12},
  number    = {3},
  pages     = {11--23},
  year      = {2018},
  note      = {Withdrawn.},
  url       = {https://doi.org/10.1186/s12918-018-0550-5},
  doi       = {10.1186/s12918-018-0550-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Hall-SwanCNC18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Abd-RabboM17,
  author    = {Diala Abd{-}Rabbo and
               Stephen W. Michnick},
  title     = {Delineating functional principles of the bow tie structure of a kinase-phosphatase
               network in the budding yeast},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {38:1--38:14},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0418-0},
  doi       = {10.1186/s12918-017-0418-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Abd-RabboM17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AguileraZK17,
  author    = {Luis U. Aguilera and
               Christoph Zimmer and
               Ursula Kummer},
  title     = {A new efficient approach to fit stochastic models on the basis of
               high-throughput experimental data using a model of {IRF7} gene expression
               as case study},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {26:1--26:14},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0406-4},
  doi       = {10.1186/s12918-017-0406-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AguileraZK17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AmsteinASFDK17,
  author    = {Leonie Amstein and
               J{\"{o}}rg Ackermann and
               Jennifer Scheidel and
               Simone Fulda and
               Ivan Dikic and
               Ina Koch},
  title     = {Manatee invariants reveal functional pathways in signaling networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {72:1--72:11},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0448-7},
  doi       = {10.1186/s12918-017-0448-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AmsteinASFDK17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AquinoHJLHCEHJS17,
  author    = {Patricia Aquino and
               Brent Honda and
               Suma Jaini and
               Anna Lyubetskaya and
               Krutika Hosur and
               Joanna G. Chiu and
               Iriny Ekladious and
               Dongjian Hu and
               Lin Jin and
               Marianna K. Sayeg and
               Arion Stettner and
               Julia Wang and
               Brandon G. Wong and
               Winnie S. Wong and
               Stephen L. Alexander and
               Cong Ba and
               Seth I. Bensussen and
               David B. Bernstein and
               Dana Braff and
               Susie Cha and
               Daniel I. Cheng and
               Jang{-}Hwan Cho and
               Kenny Chou and
               James Chuang and
               Daniel E. Gastler and
               Daniel J. Grasso and
               John S. Greifenberger and
               Chen Guo and
               Anna K. Hawes and
               Divya V. Israni and
               Saloni R. Jain and
               Jessica Kim and
               Junyu Lei and
               Hao Li and
               David Li and
               Qian Li and
               Christopher P. Mancuso and
               Ning Mao and
               Salwa F. Masud and
               Cari L. Meisel and
               Jing Mi and
               Christine S. Nykyforchyn and
               Minhee Park and
               Hannah M. Peterson and
               Alfred K. Ramirez and
               Daniel S. Reynolds and
               Nae Gyune Rim and
               Jared C. Saffie and
               Hang Su and
               Wendell R. Su and
               Yaqing Su and
               Meng Sun and
               Meghan M. Thommes and
               Tao Tu and
               Nitinun Varongchayakul and
               Tyler E. Wagner and
               Benjamin H. Weinberg and
               Rouhui Yang and
               Anastasia Yaroslavsky and
               Christine Yoon and
               Yanyu Zhao and
               Alicia J. Zollinger and
               Anne M. Stringer and
               John W. Foster and
               Joseph Wade and
               Sahadaven Raman and
               Natasha Broude and
               Wilson W. Wong and
               James E. Galagan},
  title     = {Coordinated regulation of acid resistance in Escherichia coli},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {1:1--1:15},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-016-0376-y},
  doi       = {10.1186/s12918-016-0376-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AquinoHJLHCEHJS17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AsamiKK17,
  author    = {Shun Asami and
               Daisuke Kiga and
               Akihiko Konagaya},
  title     = {Constraint-based perturbation analysis with cluster Newton method:
               a case study of personalized parameter estimations with irinotecan
               whole-body physiologically based pharmacokinetic model},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-7}},
  pages     = {151--162},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0513-2},
  doi       = {10.1186/s12918-017-0513-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AsamiKK17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AvramidisA17,
  author    = {Eleftherios Avramidis and
               Ozgur E. Akman},
  title     = {Optimisation of an exemplar oculomotor model using multi-objective
               genetic algorithms executed on a {GPU-CPU} combination},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {40:1--40:23},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0416-2},
  doi       = {10.1186/s12918-017-0416-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AvramidisA17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Balasubramanian17,
  author    = {Pavithra K. Balasubramanian and
               Anand Balupuri and
               Hee{-}Young Kang and
               Seung Joo Cho},
  title     = {Receptor-guided 3D-QSAR studies, molecular dynamics simulation and
               free energy calculations of Btk kinase inhibitors},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-2}},
  pages     = {6:1--6:11},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0385-5},
  doi       = {10.1186/s12918-017-0385-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Balasubramanian17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BallnusHHGHT17,
  author    = {Benjamin Ballnus and
               Sabine Hug and
               Kathrin Hatz and
               Linus G{\"{o}}rlitz and
               Jan Hasenauer and
               Fabian J. Theis},
  title     = {Comprehensive benchmarking of Markov chain Monte Carlo methods for
               dynamical systems},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {63:1--63:18},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0433-1},
  doi       = {10.1186/s12918-017-0433-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BallnusHHGHT17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BalomenosTATKM17,
  author    = {Athanasios D. Balomenos and
               Panagiotis Tsakanikas and
               Zafiro Aspridou and
               Anastasia P. Tampakaki and
               Konstantinos P. Koutsoumanis and
               Elias S. Manolakos},
  title     = {Image analysis driven single-cell analytics for systems microbiology},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {43:1--43:21},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0399-z},
  doi       = {10.1186/s12918-017-0399-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BalomenosTATKM17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BanerjeePBGPR17,
  author    = {Deepanwita Banerjee and
               Dharmeshkumar Parmar and
               Nivedita Bhattacharya and
               Avinash D. Ghanate and
               Venkateswarlu Panchagnula and
               Anu Raghunathan},
  title     = {A scalable metabolite supplementation strategy against antibiotic
               resistant pathogen Chromobacterium violaceum induced by {NAD+/NADH+}
               imbalance},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {51:1--51:20},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0427-z},
  doi       = {10.1186/s12918-017-0427-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BanerjeePBGPR17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BassenVMBV17,
  author    = {David M. Bassen and
               Michael Vilkhovoy and
               Mason Minot and
               Jonathan T. Butcher and
               Jeffrey D. Varner},
  title     = {JuPOETs: a constrained multiobjective optimization approach to estimate
               biochemical model ensembles in the Julia programming language},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {10:1--10:11},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-016-0380-2},
  doi       = {10.1186/s12918-016-0380-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BassenVMBV17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BotiaVFGDHLRW17,
  author    = {Juan A. Bot{\'{\i}}a and
               Jana Vandrovcova and
               Paola Forabosco and
               Sebastian Guelfi and
               Karishma D'Sa and
               John Hardy and
               Cathryn M. Lewis and
               Mina Ryten and
               Michael E. Weale},
  title     = {An additional k-means clustering step improves the biological features
               of {WGCNA} gene co-expression networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {47:1--47:16},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0420-6},
  doi       = {10.1186/s12918-017-0420-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BotiaVFGDHLRW17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BottjeKRWLH17,
  author    = {Walter Bottje and
               Byung{-}Whi Kong and
               Antonio Reverter and
               Ashley J. Waardenberg and
               Kentu Lassiter and
               Nicholas J. Hudson},
  title     = {Progesterone signalling in broiler skeletal muscle is associated with
               divergent feed efficiency},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {29:1--29:16},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0396-2},
  doi       = {10.1186/s12918-017-0396-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BottjeKRWLH17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BourdakouS17,
  author    = {Marilena M. Bourdakou and
               George M. Spyrou},
  title     = {Informed walks: whispering hints to gene hunters inside networks'
               jungle},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {97:1--97:11},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0473-6},
  doi       = {10.1186/s12918-017-0473-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BourdakouS17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChenLH17,
  author    = {Weiqi Chen and
               Jing Liu and
               Shan He},
  title     = {Prior knowledge guided active modules identification: an integrated
               multi-objective approach},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-2}},
  pages     = {8:1--8:12},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0388-2},
  doi       = {10.1186/s12918-017-0388-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChenLH17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChenLWC17,
  author    = {Minghan Chen and
               Fei Li and
               Shuo Wang and
               Young Cao},
  title     = {Stochastic modeling and simulation of reaction-diffusion system with
               Hill function dynamics},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {3},
  pages     = {21:1--21:11},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0401-9},
  doi       = {10.1186/s12918-017-0401-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChenLWC17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChenardGVCTN17,
  author    = {Thierry Ch{\'{e}}nard and
               Fr{\'{e}}d{\'{e}}ric Gu{\'{e}}nard and
               Marie{-}Claude Vohl and
               Andr{\'{e}} Carpentier and
               Andr{\'{e}} Tchernof and
               Rafael J. Najmanovich},
  title     = {Remodeling adipose tissue through in silico modulation of fat storage
               for the prevention of type 2 diabetes},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {60:1--60:15},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0438-9},
  doi       = {10.1186/s12918-017-0438-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChenardGVCTN17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChengHWLGZ17,
  author    = {Zhanzhan Cheng and
               Kai Huang and
               Yang Wang and
               Hui Liu and
               Jihong Guan and
               Shuigeng Zhou},
  title     = {Selecting high-quality negative samples for effectively predicting
               protein-RNA interactions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-2}},
  pages     = {9:1--9:11},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0390-8},
  doi       = {10.1186/s12918-017-0390-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChengHWLGZ17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChoiPCLH17,
  author    = {Daesik Choi and
               Byungkyu Park and
               Hanju Chae and
               Wook Lee and
               Kyungsook Han},
  title     = {Predicting protein-binding regions in {RNA} using nucleotide profiles
               and compositions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-2}},
  pages     = {16:1--16:12},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0386-4},
  doi       = {10.1186/s12918-017-0386-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChoiPCLH17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChuTSR17,
  author    = {Brian K. Chu and
               Margaret J. Tse and
               Royce R. Sato and
               Elizabeth L. Read},
  title     = {Markov State Models of gene regulatory networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {14:1--14:17},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0394-4},
  doi       = {10.1186/s12918-017-0394-4},
  timestamp = {Sat, 05 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChuTSR17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Cueto-RojasMHPM17,
  author    = {Hugo F. Cueto{-}Rojas and
               Nicholas Milne and
               Ward van Helmond and
               Mervin M. Pieterse and
               Antonius J. A. van Maris and
               Jean{-}Marc Daran and
               Sebastian Aljoscha Wahl},
  title     = {Membrane potential independent transport of {NH3} in the absence of
               ammonium permeases in Saccharomyces cerevisiae},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {49:1--49:13},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-016-0381-1},
  doi       = {10.1186/s12918-016-0381-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Cueto-RojasMHPM17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/DolomanVMF17,
  author    = {Anna Doloman and
               Honey Varghese and
               Charles D. Miller and
               Nicholas S. Flann},
  title     = {Modeling de novo granulation of anaerobic sludge},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {69:1--69:12},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0443-z},
  doi       = {10.1186/s12918-017-0443-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/DolomanVMF17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FuDJWY17,
  author    = {Changhe Fu and
               Su Deng and
               Guangxu Jin and
               Xinxin Wang and
               Zu{-}Guo Yu},
  title     = {Bayesian network model for identification of pathways by integrating
               protein interaction with genetic interaction data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-4}},
  pages     = {35--42},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0454-9},
  doi       = {10.1186/s12918-017-0454-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FuDJWY17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GaborVB17,
  author    = {Attila G{\'{a}}bor and
               Alejandro Fern{\'{a}}ndez Villaverde and
               Julio R. Banga},
  title     = {Parameter identifiability analysis and visualization in large-scale
               kinetic models of biosystems},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {54:1--54:16},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0428-y},
  doi       = {10.1186/s12918-017-0428-y},
  timestamp = {Mon, 15 Jun 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GaborVB17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GanLZWJ17,
  author    = {Mingxin Gan and
               Wenran Li and
               Wanwen Zeng and
               Xiaojian Wang and
               Rui Jiang},
  title     = {Mimvec: a deep learning approach for analyzing the human phenome},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-4}},
  pages     = {3--16},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0451-z},
  doi       = {10.1186/s12918-017-0451-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GanLZWJ17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GaoWDZ17,
  author    = {Jie Gao and
               Kang Wang and
               Tao Ding and
               Shanshan Zhu},
  title     = {Forecasting influenza {A} pandemic outbreak using protein dynamical
               network biomarkers},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-4}},
  pages     = {113--119},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0460-y},
  doi       = {10.1186/s12918-017-0460-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GaoWDZ17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GlatignyGBDM17,
  author    = {Annie Glatigny and
               Philippe Gambette and
               Alexa Bourand{-}Plantefol and
               Genevi{\`{e}}ve Dujardin and
               Marie{-}H{\'{e}}l{\`{e}}ne Mucchielli{-}Giorgi},
  title     = {Development of an in silico method for the identification of subcomplexes
               involved in the biogenesis of multiprotein complexes in Saccharomyces
               cerevisiae},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {67:1--67:12},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0442-0},
  doi       = {10.1186/s12918-017-0442-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GlatignyGBDM17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GuoCTLWBZ17,
  author    = {Wenbin Guo and
               Cristiane P. G. Calixto and
               Nikoleta Tzioutziou and
               Ping Lin and
               Robbie Waugh and
               John W. S. Brown and
               Runxuan Zhang},
  title     = {Evaluation and improvement of the regulatory inference for large co-expression
               networks with limited sample size},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {62:1--62:12},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0440-2},
  doi       = {10.1186/s12918-017-0440-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GuoCTLWBZ17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GuoTWW17,
  author    = {Yuzhen Guo and
               Fengying Tao and
               Zikai Wu and
               Yong Wang},
  title     = {Hybrid method to solve {HP} model on 3D lattice and to probe protein
               stability upon amino acid mutations},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-4}},
  pages     = {99--111},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0459-4},
  doi       = {10.1186/s12918-017-0459-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GuoTWW17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HartungBWK17,
  author    = {Niklas Hartung and
               Uwe Benary and
               Jana Wolf and
               Bente Kofahl},
  title     = {Paracrine and autocrine regulation of gene expression by Wnt-inhibitor
               Dickkopf in wild-type and mutant hepatocytes},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {98:1--98:16},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0470-9},
  doi       = {10.1186/s12918-017-0470-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HartungBWK17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HeZRC17,
  author    = {Jing He and
               Zhou Zhou and
               Michael Reed and
               Andrea Califano},
  title     = {Accelerated parallel algorithm for gene network reverse engineering},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-4}},
  pages     = {85--97},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0458-5},
  doi       = {10.1186/s12918-017-0458-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HeZRC17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HerajyLRH17,
  author    = {Mostafa Herajy and
               Fei Liu and
               Christian Rohr and
               Monika Heiner},
  title     = {Snoopy's hybrid simulator: a tool to construct and simulate hybrid
               biological models},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {71:1--71:16},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0449-6},
  doi       = {10.1186/s12918-017-0449-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HerajyLRH17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HoekM17,
  author    = {Milan J. A. van Hoek and
               Roeland M. H. Merks},
  title     = {Emergence of microbial diversity due to cross-feeding interactions
               in a spatial model of gut microbial metabolism},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {56:1--56:18},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0430-4},
  doi       = {10.1186/s12918-017-0430-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HoekM17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HuangCJCLCLL17,
  author    = {Kai{-}Yao Huang and
               Tzu{-}Hao Chang and
               Jhih{-}Hua Jhong and
               Yu{-}Hsiang Chi and
               Wen{-}Chi Li and
               Chien{-}Lung Chan and
               K. Robert Lai and
               Tzong{-}Yi Lee},
  title     = {Identification of natural antimicrobial peptides from bacteria through
               metagenomic and metatranscriptomic analysis of high-throughput transcriptome
               data of Taiwanese oolong teas},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-7}},
  pages     = {29--44},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0503-4},
  doi       = {10.1186/s12918-017-0503-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HuangCJCLCLL17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HuhtinenHLLPS17,
  author    = {Anna Huhtinen and
               Vesa Hongisto and
               Asta Laiho and
               Eliisa L{\"{o}}yttyniemi and
               Dirk Pijnenburg and
               Mika Scheinin},
  title     = {Gene expression profiles and signaling mechanisms in {\(\alpha\)}2B-adrenoceptor-evoked
               proliferation of vascular smooth muscle cells},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {65:1--65:30},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0439-8},
  doi       = {10.1186/s12918-017-0439-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HuhtinenHLLPS17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JayasundaraPMJ17,
  author    = {S. D. Pavithra Jayasundara and
               S. S. N. Perera and
               Gathsaurie Neelika Malavige and
               Saroj Jayasinghe},
  title     = {Mathematical modelling and a systems science approach to describe
               the role of cytokines in the evolution of severe dengue},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {34:1--34:14},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0415-3},
  doi       = {10.1186/s12918-017-0415-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JayasundaraPMJ17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JenschTR17,
  author    = {Antje Jensch and
               Caterina Thomaseth and
               Nicole Radde},
  title     = {Sampling-based Bayesian approaches reveal the importance of quasi-bistable
               behavior in cellular decision processes on the example of the {MAPK}
               signaling pathway in {PC-12} cell lines},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {11:1--11:15},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0392-6},
  doi       = {10.1186/s12918-017-0392-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JenschTR17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JeongY17,
  author    = {Hyundoo Jeong and
               Byung{-}Jun Yoon},
  title     = {{SEQUOIA:} significance enhanced network querying through context-sensitive
               random walk and minimization of network conductance},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {3},
  pages     = {20:1--20:11},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0404-6},
  doi       = {10.1186/s12918-017-0404-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JeongY17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JiWYDMS17,
  author    = {Zhiwei Ji and
               Bing Wang and
               Ke Yan and
               Ligang Dong and
               Guanmin Meng and
               Lei Shi},
  title     = {A linear programming computational framework integrates phosphor-proteomics
               and prior knowledge to predict drug efficacy},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-7}},
  pages     = {127:1--127:13},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0501-6},
  doi       = {10.1186/s12918-017-0501-6},
  timestamp = {Mon, 15 Jun 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JiWYDMS17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JiangCCHY17,
  author    = {Hao Jiang and
               Wai{-}Ki Ching and
               Wai{-}Shun Cheung and
               Wenpin Hou and
               Hong Yin},
  title     = {Hadamard Kernel {SVM} with applications for breast cancer outcome
               predictions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-7}},
  pages     = {163--174},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0514-1},
  doi       = {10.1186/s12918-017-0514-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JiangCCHY17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JiangCQC17,
  author    = {Hao Jiang and
               Wai{-}Ki Ching and
               Yushan Qiu and
               Xiaoqing Cheng},
  title     = {Optimal projection method determination by Logdet Divergence and perturbed
               von-Neumann Divergence},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {6},
  pages     = {45--61},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0479-0},
  doi       = {10.1186/s12918-017-0479-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JiangCQC17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KangC17,
  author    = {Jun Hyuk Kang and
               Kwang{-}Hyun Cho},
  title     = {A novel interaction perturbation analysis reveals a comprehensive
               regulatory principle underlying various biochemical oscillators},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {95:1--95:12},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0472-7},
  doi       = {10.1186/s12918-017-0472-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KangC17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KaoWHKHHL17,
  author    = {Hui{-}Ju Kao and
               Shun{-}Long Weng and
               Kai{-}Yao Huang and
               Fergie Joanda Kaunang and
               Justin Bo{-}Kai Hsu and
               Chien{-}Hsun Huang and
               Tzong{-}Yi Lee},
  title     = {MDD-carb: a combinatorial model for the identification of protein
               carbonylation sites with substrate motifs},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-7}},
  pages     = {127--140},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0511-4},
  doi       = {10.1186/s12918-017-0511-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KaoWHKHHL17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KapetisSYGXWSLF17,
  author    = {Dimos Kapetis and
               Jenny Sassone and
               Yang Yang and
               Barbara Galbardi and
               Markos N. Xenakis and
               Ronald L. Westra and
               Radek Szklarczyk and
               Patrick Lindsey and
               Catharina G. Faber and
               Monique Gerrits and
               Ingemar S. J. Merkies and
               Sulayman D. Dib{-}Hajj and
               Massimo Mantegazza and
               Stephen G. Waxman and
               Giuseppe Lauria and
               Michela Taiana and
               Margherita Marchi and
               Raffaella Lombardi and
               Daniele Cazzato and
               Filippo Martinelli{-}Boneschi and
               Andrea Zauli and
               Ferdinando Clarelli and
               Silvia Santoro and
               Ignazio Lopez and
               Angelo Quattrini and
               Janneke Hoeijmakers and
               Maurice Sopacua and
               Bianca de Greef and
               Hubert J. M. Smeets and
               Rowida Al Momani and
               Jo Michel Vanoevelen and
               Ivo Eijkenboom and
               Sandrine Cest{\`{e}}le and
               Oana Chever and
               Rayaz A. Malik and
               Mitra Tavakoli and
               Dan Ziegler},
  title     = {Network topology of NaV1.7 mutations in sodium channel-related painful
               disorders},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {28:1--28:16},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-016-0382-0},
  doi       = {10.1186/s12918-016-0382-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KapetisSYGXWSLF17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KashafAL17,
  author    = {Sara Saheb Kashaf and
               Claudio Angione and
               Pietro Li{\`{o}}},
  title     = {Making life difficult for Clostridium difficile: augmenting the pathogen's
               metabolic model with transcriptomic and codon usage data for better
               therapeutic target characterization},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {25:1--25:13},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0395-3},
  doi       = {10.1186/s12918-017-0395-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KashafAL17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KhatibiZWTMB17,
  author    = {Shabnam Khatibi and
               Hong{-}Jian Zhu and
               John Wagner and
               Chin Wee Tan and
               Jonathan H. Manton and
               Antony W. Burgess},
  title     = {Mathematical model of TGF-{\(\beta\)}signalling: feedback coupling
               is consistent with signal switching},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {48:1--48:15},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0421-5},
  doi       = {10.1186/s12918-017-0421-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KhatibiZWTMB17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KimCSC17,
  author    = {Yunseong Kim and
               Sea Choi and
               Dongkwan Shin and
               Kwang{-}Hyun Cho},
  title     = {Quantitative evaluation and reversion analysis of the attractor landscapes
               of an intracellular regulatory network for colorectal cancer},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {45:1--45:11},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0424-2},
  doi       = {10.1186/s12918-017-0424-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KimCSC17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KuglerBE17,
  author    = {Philipp K{\"{u}}gler and
               M. A. K. Bulelzai and
               Andr{\'{e}} H. Erhardt},
  title     = {Period doubling cascades of limit cycles in cardiac action potential
               models as precursors to chaotic early Afterdepolarizations},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {42:1--42:13},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0422-4},
  doi       = {10.1186/s12918-017-0422-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KuglerBE17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KuzmanovskaMMZK17,
  author    = {Irena Kuzmanovska and
               Andreas Milias{-}Argeitis and
               Jan Mikelson and
               Christoph Zechner and
               Mustafa Khammash},
  title     = {Parameter inference for stochastic single-cell dynamics from lineage
               tree data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {52:1--52:13},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0425-1},
  doi       = {10.1186/s12918-017-0425-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KuzmanovskaMMZK17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LabenaYDZG17,
  author    = {Abraham A. Labena and
               Yuan{-}Nong Ye and
               Chuan Dong and
               Fa{-}Zhan Zhang and
               Feng{-}Biao Guo},
  title     = {{SSER:} Species specific essential reactions database},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {50:1--50:8},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0426-0},
  doi       = {10.1186/s12918-017-0426-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LabenaYDZG17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LaiF17,
  author    = {Xiulan Lai and
               Avner Friedman},
  title     = {Combination therapy for melanoma with {BRAF/MEK} inhibitor and immune
               checkpoint inhibitor: a mathematical model},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {70:1--70:18},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0446-9},
  doi       = {10.1186/s12918-017-0446-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LaiF17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LeP17,
  author    = {Duc{-}Hau Le and
               Van{-}Huy Pham},
  title     = {{HGPEC:} a Cytoscape app for prediction of novel disease-gene and
               disease-disease associations and evidence collection based on a random
               walk on heterogeneous network},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {61:1--61:10},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0437-x},
  doi       = {10.1186/s12918-017-0437-x},
  timestamp = {Sat, 05 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LeP17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiG17,
  author    = {Qi Li and
               Yongyi Gong},
  title     = {A geometric method for contour extraction of Drosophila embryos},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {6},
  pages     = {35--44},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0478-1},
  doi       = {10.1186/s12918-017-0478-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiG17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiSDSLKM17,
  author    = {Biao Li and
               Amanda Sierra and
               Juan Jose Deudero and
               Fatih Semerci and
               Andrew Laitman and
               Marek Kimmel and
               Mirjana Maletic{-}Savatic},
  title     = {Multitype Bellman-Harris branching model provides biological predictors
               of early stages of adult hippocampal neurogenesis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-5}},
  pages     = {90:1--90:16},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0468-3},
  doi       = {10.1186/s12918-017-0468-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiSDSLKM17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiVNWYT17,
  author    = {Huipeng Li and
               Lakshmi Venkatraman and
               Balakrishnan Chakrapani Narmada and
               Jacob K. White and
               Hanry Yu and
               Lisa Tucker{-}Kellogg},
  title     = {Computational analysis reveals the coupling between bistability and
               the sign of a feedback loop in a TGF-{\(\beta\)}1 activation model},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-7}},
  pages     = {91--99},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0508-z},
  doi       = {10.1186/s12918-017-0508-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiVNWYT17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiWCLCLL17,
  author    = {Ru{-}Dong Li and
               Yin Wang and
               Hui Cheng and
               Gang Liu and
               Tao Cheng and
               Yunlong Liu and
               Lei Liu},
  title     = {System modeling reveals the molecular mechanisms of {HSC} cell cycle
               alteration mediated by Maff and Egr3 under leukemia},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-5}},
  pages     = {91:1--91:12},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0467-4},
  doi       = {10.1186/s12918-017-0467-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiWCLCLL17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiWRWFLL17,
  author    = {Jin Li and
               Yang Wang and
               Xi Rao and
               Yue Wang and
               Weixing Feng and
               Hong Liang and
               Yunlong Liu},
  title     = {Roles of alternative splicing in modulating transcriptional regulation},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-5}},
  pages     = {89:1--89:12},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0465-6},
  doi       = {10.1186/s12918-017-0465-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiWRWFLL17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuGJ17,
  author    = {Qiao Liu and
               Mingxin Gan and
               Rui Jiang},
  title     = {A sequence-based method to predict the impact of regulatory variants
               using random forest},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-2}},
  pages     = {7:1--7:9},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0389-1},
  doi       = {10.1186/s12918-017-0389-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuGJ17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuSMM17,
  author    = {Fei Liu and
               Deshun Sun and
               Ryutaro Murakami and
               Hiroshi Matsuno},
  title     = {Modeling and analysis of the Delta-Notch dependent boundary formation
               in the Drosophila large intestine},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-4}},
  pages     = {43--60},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0455-8},
  doi       = {10.1186/s12918-017-0455-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuSMM17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuWZGWS17,
  author    = {Jin{-}Xing Liu and
               Dong{-}Qin Wang and
               Chun{-}Hou Zheng and
               Ying{-}Lian Gao and
               Sha{-}Sha Wu and
               Junliang Shang},
  title     = {Identifying drug-pathway association pairs based on L2, 1-integrative
               penalized matrix decomposition},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {6},
  pages     = {63--73},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0480-7},
  doi       = {10.1186/s12918-017-0480-7},
  timestamp = {Sat, 13 Jun 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuWZGWS17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuWZH17,
  author    = {Qingping Liu and
               Jiahao Wang and
               Yan Zhu and
               Yongqun He},
  title     = {Ontology-based systematic representation and analysis of traditional
               Chinese drugs against rheumatism},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-7}},
  pages     = {113--125},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0510-5},
  doi       = {10.1186/s12918-017-0510-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuWZH17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuYLSL17,
  author    = {Xiaoxia Liu and
               Zhihao Yang and
               Hongfei Lin and
               Michael Simmons and
               Zhiyong Lu},
  title     = {DIGNiFI: Discovering causative genes for orphan diseases using protein-protein
               interaction networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {3},
  pages     = {23:1--23:11},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0402-8},
  doi       = {10.1186/s12918-017-0402-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuYLSL17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LoiraMCRTGGEM17,
  author    = {Nicol{\'{a}}s Loira and
               Sebasti{\'{a}}n N. Mendoza and
               Mar{\'{\i}}a Paz Cort{\'{e}}s and
               Natalia Rojas and
               Dante Travisany and
               Alex Di G{\'{e}}nova and
               Natalia Gajardo and
               Nicole Ehrenfeld and
               Alejandro Maass},
  title     = {Reconstruction of the microalga Nannochloropsis salina genome-scale
               metabolic model with applications to lipid production},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {66:1--66:17},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0441-1},
  doi       = {10.1186/s12918-017-0441-1},
  timestamp = {Sat, 05 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LoiraMCRTGGEM17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LundKBPKKA17,
  author    = {Anne Mathilde Lund and
               Christian Schr{\o}der Kaas and
               Julian Brandl and
               Lasse Ebdrup Pedersen and
               Helene Faustrup Kildegaard and
               Claus Kristensen and
               Mikael R{\o}rdam Andersen},
  title     = {Network reconstruction of the mouse secretory pathway applied on {CHO}
               cell transcriptome data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {37:1--37:17},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0414-4},
  doi       = {10.1186/s12918-017-0414-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LundKBPKKA17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MaZ17,
  author    = {Lichun Ma and
               Jie Zheng},
  title     = {A polynomial based model for cell fate prediction in human diseases},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-7}},
  pages     = {15--27},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0502-5},
  doi       = {10.1186/s12918-017-0502-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MaZ17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MallCBIC17,
  author    = {Raghvendra Mall and
               Luigi Cerulo and
               Halima Bensmail and
               Antonio Iavarone and
               Michele Ceccarelli},
  title     = {Detection of statistically significant network changes in complex
               biological networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {32:1--32:17},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0412-6},
  doi       = {10.1186/s12918-017-0412-6},
  timestamp = {Mon, 15 Jun 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MallCBIC17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Martinez-Sanchez17,
  author    = {Mariana Esther Martinez{-}Sanchez and
               Marcia Hiriart and
               Elena R. {\'{A}}lvarez{-}Buylla},
  title     = {The {CD4+} {T} cell regulatory network mediates inflammatory responses
               during acute hyperinsulinemia: a simulation study},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {64:1--64:12},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0436-y},
  doi       = {10.1186/s12918-017-0436-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Martinez-Sanchez17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MazayaTK17,
  author    = {Maulida Mazaya and
               Hung{-}Cuong Trinh and
               Yung{-}Keun Kwon},
  title     = {Construction and analysis of gene-gene dynamics influence networks
               based on a Boolean model},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-7}},
  pages     = {101--111},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0509-y},
  doi       = {10.1186/s12918-017-0509-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MazayaTK17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Mendez-LopezDDE17,
  author    = {Luis Fernando M{\'{e}}ndez{-}L{\'{o}}pez and
               Jose Davila{-}Velderrain and
               Elisa Dom{\'{\i}}nguez{-}H{\"{u}}ttinger and
               Christian Enr{\'{\i}}quez{-}Olgu{\'{\i}}n and
               Juan Carlos Mart{\'{\i}}nez{-}Garc{\'{\i}}a and
               Elena R. {\'{A}}lvarez{-}Buylla},
  title     = {Gene regulatory network underlying the immortalization of epithelial
               cells},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {24:1--24:15},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0393-5},
  doi       = {10.1186/s12918-017-0393-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Mendez-LopezDDE17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MoonLJLSK17,
  author    = {Ji Hwan Moon and
               Sangsoo Lim and
               Kyuri Jo and
               Sangseon Lee and
               Seokjun Seo and
               Sun Kim},
  title     = {PINTnet: construction of condition-specific pathway interaction network
               by computing shortest paths on weighted {PPI}},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-2}},
  pages     = {15:1--15:13},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0387-3},
  doi       = {10.1186/s12918-017-0387-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MoonLJLSK17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/NortonWPP17,
  author    = {Kerri{-}Ann Norton and
               Travis Wallace and
               Niranjan B. Pandey and
               Aleksander S. Popel},
  title     = {An agent-based model of triple-negative breast cancer: the interplay
               between chemokine receptor {CCR5} expression, cancer stem cells, and
               hypoxia},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {68:1--68:15},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0445-x},
  doi       = {10.1186/s12918-017-0445-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/NortonWPP17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/OguzWBT17,
  author    = {Cihan Oguz and
               Layne T. Watson and
               William T. Baumann and
               John J. Tyson},
  title     = {Predicting network modules of cell cycle regulators using relative
               protein abundance statistics},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {30:1--30:24},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0409-1},
  doi       = {10.1186/s12918-017-0409-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/OguzWBT17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/OmelyanchukM17,
  author    = {Leonid V. Omelyanchuk and
               Alina F. Munzarova},
  title     = {Theoretical model of mitotic spindle microtubule growth for {FRAP}
               curve interpretation},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-1}},
  pages     = {17--26},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-016-0378-9},
  doi       = {10.1186/s12918-016-0378-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/OmelyanchukM17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PapadopoulosCNB17,
  author    = {Theofilos Papadopoulos and
               Audrey Casemayou and
               Eric Neau and
               Benjamin Breuil and
               C{\'{e}}cile Caubet and
               Denis Calise and
               Barbara A. Thornhill and
               Magdalena Bachvarova and
               Julie Belliere and
               Robert L. Chevalier and
               Panagiotis Moulos and
               Dimcho Bachvarov and
               Benedicte Buffin{-}Meyer and
               St{\'{e}}phane Decramer and
               Fran{\c{c}}oise Conte Auriol and
               Jean{-}Loup Bascands and
               Joost P. Schanstra and
               Julie Klein},
  title     = {Systems biology combining human- and animal-data miRNA and mRNA data
               identifies new targets in ureteropelvic junction obstruction},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {31:1--31:11},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0411-7},
  doi       = {10.1186/s12918-017-0411-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PapadopoulosCNB17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ParkYRLLYP17,
  author    = {Chihyun Park and
               So Jeong Yun and
               Sung Jin Ryu and
               Soyoung Lee and
               Young Sam Lee and
               Youngmi Yoon and
               Sang{-}Chul Park},
  title     = {Systematic identification of an integrative network module during
               senescence from time-series gene expression},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {36:1--36:13},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0417-1},
  doi       = {10.1186/s12918-017-0417-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ParkYRLLYP17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ParmarDSM17,
  author    = {Jignesh H. Parmar and
               Grey Davis and
               Hope Shevchuk and
               Pedro Mendes},
  title     = {Modeling the dynamics of mouse iron body distribution: hepcidin is
               necessary but not sufficient},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {57:1--57:13},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0431-3},
  doi       = {10.1186/s12918-017-0431-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ParmarDSM17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PengLMWZN17,
  author    = {Tao Peng and
               Linan Liu and
               Adam L MacLean and
               Chi Wut Wong and
               Weian Zhao and
               Qing Nie},
  title     = {A mathematical model of mechanotransduction reveals how mechanical
               memory regulates mesenchymal stem cell fate decisions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {55:1--55:15},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0429-x},
  doi       = {10.1186/s12918-017-0429-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PengLMWZN17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PezzeN17,
  author    = {Piero Dalle Pezze and
               Nicolas Le Nov{\`{e}}re},
  title     = {SBpipe: a collection of pipelines for automating repetitive simulation
               and analysis tasks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {46:1--46:5},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0423-3},
  doi       = {10.1186/s12918-017-0423-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PezzeN17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PodkolodnayaTP17,
  author    = {Olga A. Podkolodnaya and
               Natalya N. Tverdokhleb and
               Nikolay Podkolodnyy},
  title     = {Computational modeling of the cell-autonomous mammalian circadian
               oscillator},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-1}},
  pages     = {27--42},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-016-0379-8},
  doi       = {10.1186/s12918-016-0379-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PodkolodnayaTP17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RodicBZDD17,
  author    = {Andjela Rodic and
               Bojana Blagojevic and
               Evgeny M. Zdobnov and
               Magdalena Djordjevic and
               Marko Djordjevic},
  title     = {Understanding key features of bacterial restriction-modification systems
               through quantitative modeling},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-1}},
  pages     = {1--15},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-016-0377-x},
  doi       = {10.1186/s12918-016-0377-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RodicBZDD17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RowlandPM17,
  author    = {Michael A. Rowland and
               Edward J. Perkins and
               Michael L. Mayo},
  title     = {Physiological fidelity or model parsimony? The relative performance
               of reverse-toxicokinetic modeling approaches},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {35:1--35:11},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0407-3},
  doi       = {10.1186/s12918-017-0407-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RowlandPM17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RoyRS17,
  author    = {Ranjita Dutta Roy and
               Christian Rosenmund and
               Melanie I. Stefan},
  title     = {Cooperative binding mitigates the high-dose hook effect},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {74:1--74:10},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0447-8},
  doi       = {10.1186/s12918-017-0447-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RoyRS17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RuffaloSPVB17,
  author    = {Matthew Ruffalo and
               Petar Stojanov and
               Venkata Krishna Pillutla and
               Rohan Varma and
               Ziv Bar{-}Joseph},
  title     = {Reconstructing cancer drug response networks using multitask learning},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {96:1--96:15},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0471-8},
  doi       = {10.1186/s12918-017-0471-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RuffaloSPVB17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SaituaTPA17,
  author    = {Francisco Saitua and
               Paulina Torres and
               Jose Ricardo P{\'{e}}rez{-}Correa and
               Eduardo Agosin},
  title     = {Dynamic genome-scale metabolic modeling of the yeast Pichia pastoris},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {27:1--27:21},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0408-2},
  doi       = {10.1186/s12918-017-0408-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SaituaTPA17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SarkerPNKUR17,
  author    = {Joyatee M. Sarker and
               Serena M. Pearce and
               Robert P. Nelson Jr. and
               Tamara Kinzer{-}Ursem and
               David M. Umulis and
               Ann E. Rundell},
  title     = {An Integrative multi-lineage model of variation in leukopoiesis and
               acute myelogenous leukemia},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {78:1--78:18},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0469-2},
  doi       = {10.1186/s12918-017-0469-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SarkerPNKUR17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Serrano-Bermudez17,
  author    = {Luis Miguel Serrano{-}Berm{\'{u}}dez and
               Andr{\'{e}}s Fernando Gonz{\'{a}}lez Barrios and
               Costas D. Maranas and
               Dolly Montoya Casta{\~{n}}o},
  title     = {Clostridium butyricum maximizes growth while minimizing enzyme usage
               and {ATP} production: metabolic flux distribution of a strain cultured
               in glycerol},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {58:1--58:13},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0434-0},
  doi       = {10.1186/s12918-017-0434-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Serrano-Bermudez17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ShiW17,
  author    = {Xiaofei Shi and
               Ruiqi Wang},
  title     = {Glioma cell fate decisions mediated by Dll1-Jag1-Fringe in Notch1
               signaling pathway},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-4}},
  pages     = {75--84},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0457-6},
  doi       = {10.1186/s12918-017-0457-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ShiW17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SimpsonLS17,
  author    = {Matthew J. Simpson and
               Kai{-}Yin Lo and
               Yung{-}Shin Sun},
  title     = {Quantifying the roles of random motility and directed motility using
               advection-diffusion theory for a 3T3 fibroblast cell migration assay
               stimulated with an electric field},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {39:1--39:9},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0413-5},
  doi       = {10.1186/s12918-017-0413-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SimpsonLS17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SnowdenGT17,
  author    = {Thomas J. Snowden and
               Piet H. Van Der Graaf and
               Marcus J. Tindall},
  title     = {A combined model reduction algorithm for controlled biochemical systems},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {17:1--17:18},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0397-1},
  doi       = {10.1186/s12918-017-0397-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SnowdenGT17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SuWHHCL17,
  author    = {Min{-}Gang Su and
               Julia Tzu{-}Ya Weng and
               Justin Bo{-}Kai Hsu and
               Kai{-}Yao Huang and
               Yu{-}Hsiang Chi and
               Tzong{-}Yi Lee},
  title     = {Investigation and identification of functional post-translational
               modification sites associated with drug binding and protein-protein
               interactions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-7}},
  pages     = {69--80},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0506-1},
  doi       = {10.1186/s12918-017-0506-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SuWHHCL17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SunLZW17,
  author    = {Duanchen Sun and
               Yinliang Liu and
               Xiang{-}Sun Zhang and
               Ling{-}Yun Wu},
  title     = {NetGen: a novel network-based probabilistic generative model for gene
               set functional enrichment analysis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-4}},
  pages     = {61--74},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0456-7},
  doi       = {10.1186/s12918-017-0456-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SunLZW17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SunWZWLX17,
  author    = {Jingchun Sun and
               Qiang Wei and
               Yubo Zhou and
               Jingqi Wang and
               Qi Liu and
               Hua Xu},
  title     = {A systematic analysis of FDA-approved anticancer drugs},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-5}},
  pages     = {87:1--87:17},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0464-7},
  doi       = {10.1186/s12918-017-0464-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SunWZWLX17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TianZGH17,
  author    = {Bo Tian and
               Can Zhao and
               Feiyang Gu and
               Zengyou He},
  title     = {A two-step framework for inferring direct protein-protein interaction
               network from {AP-MS} data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-4}},
  pages     = {17--25},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0452-y},
  doi       = {10.1186/s12918-017-0452-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TianZGH17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Trejo-BanosTE17,
  author    = {Daniel Trejo{-}Ba{\~{n}}os and
               Pauline Tr{\'{e}}bulle and
               Mohamed Elati},
  title     = {Integrating transcriptional activity in genome-scale models of metabolism},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-7}},
  pages     = {81--90},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0507-0},
  doi       = {10.1186/s12918-017-0507-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Trejo-BanosTE17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TrescherML17,
  author    = {Saskia Trescher and
               Jannes M{\"{u}}nchmeyer and
               Ulf Leser},
  title     = {Estimating genome-wide regulatory activity from multi-omics data sets
               using mathematical optimization},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {41:1--41:18},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0419-z},
  doi       = {10.1186/s12918-017-0419-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TrescherML17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TruongK17,
  author    = {Cong{-}Doan Truong and
               Yung{-}Keun Kwon},
  title     = {Investigation on changes of modularity and robustness by edge-removal
               mutations in signaling networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-7}},
  pages     = {57--68},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0505-2},
  doi       = {10.1186/s12918-017-0505-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TruongK17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Tsuruyama17,
  author    = {Tatsuaki Tsuruyama},
  title     = {Kinetic stability analysis of protein assembly on the center manifold
               around the critical point},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {13:1--13:9},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0391-7},
  doi       = {10.1186/s12918-017-0391-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Tsuruyama17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TurkiW17,
  author    = {Turki Turki and
               Zhi Wei},
  title     = {A link prediction approach to cancer drug sensitivity prediction},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-5}},
  pages     = {94:1--94:14},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0463-8},
  doi       = {10.1186/s12918-017-0463-8},
  timestamp = {Mon, 15 Jun 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TurkiW17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WangM17,
  author    = {Yulin Wang and
               Hongyu Miao},
  title     = {Parameter identifiability-based optimal observation remedy for biological
               networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {53:1--53:13},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0432-2},
  doi       = {10.1186/s12918-017-0432-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WangM17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WangQ17,
  author    = {Yijie Wang and
               Xiaoning Qian},
  title     = {Finding low-conductance sets with dense interactions {(FLCD)} for
               better protein complex prediction},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {3},
  pages     = {22:1--22:11},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0405-5},
  doi       = {10.1186/s12918-017-0405-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WangQ17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WangZC17,
  author    = {Yong Wang and
               Xiang{-}Sun Zhang and
               Luonan Chen},
  title     = {Understanding biological systems through the lens of data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-4}},
  pages     = {77:1--77:2},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0450-0},
  doi       = {10.1186/s12918-017-0450-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WangZC17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WeiGNL17,
  author    = {Ou Wei and
               Zonghao Guo and
               Yun Niu and
               Wenyuan Liao},
  title     = {Model checking optimal finite-horizon control for probabilistic gene
               regulatory networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {6},
  pages     = {75--88},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0481-6},
  doi       = {10.1186/s12918-017-0481-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WeiGNL17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WelkenhuysenBBB17,
  author    = {Niek Welkenhuysen and
               Johannes Borgqvist and
               Mattias Backman and
               Loubna Bendrioua and
               Mattias Goks{\"{o}}r and
               Caroline Beck Adiels and
               Marija Cvijovic and
               Stefan Hohmann},
  title     = {Single-cell study links metabolism with nutrient signaling and reveals
               sources of variability},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {59:1--59:10},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0435-z},
  doi       = {10.1186/s12918-017-0435-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WelkenhuysenBBB17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WillH17,
  author    = {Thorsten Will and
               Volkhard Helms},
  title     = {Rewiring of the inferred protein interactome during blood development
               studied with the tool PPICompare},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {44:1--44:19},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0400-x},
  doi       = {10.1186/s12918-017-0400-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WillH17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WuMWRPL17,
  author    = {Haoyang Wu and
               Elise Miller and
               Denethi Wijegunawardana and
               Kelly Regan and
               Philip R. O. Payne and
               Fuhai Li},
  title     = {MD-Miner: a network-based approach for personalized drug repositioning},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-5}},
  pages     = {86:1--86:8},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0462-9},
  doi       = {10.1186/s12918-017-0462-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WuMWRPL17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/XuZZG17,
  author    = {Ying Xu and
               Jiaogen Zhou and
               Shuigeng Zhou and
               Jihong Guan},
  title     = {CPredictor3.0: detecting protein complexes from {PPI} networks with
               expression data and functional annotations},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-7}},
  pages     = {45--56},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0504-3},
  doi       = {10.1186/s12918-017-0504-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/XuZZG17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YangTSC17,
  author    = {Xinan Holly Yang and
               Fangming Tang and
               Jisu Shin and
               John M. Cunningham},
  title     = {Incorporating genomic, transcriptomic and clinical data: a prognostic
               and stem cell-like {MYC} and {PRC} imbalance in high-risk neuroblastoma},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-5}},
  pages     = {92:1--92:17},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0466-5},
  doi       = {10.1186/s12918-017-0466-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YangTSC17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YangYWLYZ17,
  author    = {Jian Yang and
               Tinghong Yang and
               Duzhi Wu and
               Limei Lin and
               Fan Yang and
               Jing Zhao},
  title     = {The integration of weighted human gene association networks based
               on link prediction},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {12:1--12:17},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0398-0},
  doi       = {10.1186/s12918-017-0398-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YangYWLYZ17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhangGPTG17,
  author    = {Zehua Zhang and
               Kecheng Guo and
               Gaofeng Pan and
               Jijun Tang and
               Fei Guo},
  title     = {Improvement of phylogenetic method to analyze compositional heterogeneity},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-4}},
  pages     = {27--33},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0453-x},
  doi       = {10.1186/s12918-017-0453-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhangGPTG17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhangLSLC17,
  author    = {Ben{-}gong Zhang and
               Weibo Li and
               Yazhou Shi and
               Xiaoping Liu and
               Luonan Chen},
  title     = {Detecting causality from short time-series data based on prediction
               of topologically equivalent attractors},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-7}},
  pages     = {141--150},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0512-3},
  doi       = {10.1186/s12918-017-0512-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhangLSLC17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhangLZZL17,
  author    = {Wenfei Zhang and
               Ying Liu and
               Mindy Zhang and
               Cheng Zhu and
               Yuefeng Lu},
  title     = {Quantitative reproducibility analysis for identifying reproducible
               targets from high-throughput experiments},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {73:1--73:7},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0444-y},
  doi       = {10.1186/s12918-017-0444-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhangLZZL17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhangYLCTZ17,
  author    = {Wen Zhang and
               Xiang Yue and
               Feng Liu and
               Yanlin Chen and
               Shikui Tu and
               Xining Zhang},
  title     = {A unified frame of predicting side effects of drugs by using linear
               neighborhood similarity},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {6},
  pages     = {23--34},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0477-2},
  doi       = {10.1186/s12918-017-0477-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhangYLCTZ17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhengRXZL17,
  author    = {W. Jim Zheng and
               Jianhua Ruan and
               Hua Xu and
               Zhongming Zhao and
               Zhangdong Liu},
  title     = {The International Conference on Intelligent Biology and Medicine {(ICIBM)}
               2016: putting systems biology to work},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {{S-5}},
  pages     = {88:1--88:3},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0461-x},
  doi       = {10.1186/s12918-017-0461-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhengRXZL17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZihayatDA17,
  author    = {Morteza Zihayat and
               Heidar Davoudi and
               Aijun An},
  title     = {Mining significant high utility gene regulation sequential patterns},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {6},
  pages     = {109:1--109:14},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0475-4},
  doi       = {10.1186/s12918-017-0475-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZihayatDA17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZimmerADA17,
  author    = {Anat Zimmer and
               Shlomit Amar{-}Farkash and
               Tamar Danon and
               Uri Alon},
  title     = {Dynamic proteomics reveals bimodal protein dynamics of cancer cells
               in response to {HSP90} inhibitor},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {1},
  pages     = {33:1--33:11},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0410-8},
  doi       = {10.1186/s12918-017-0410-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZimmerADA17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZollanvariA17,
  author    = {Amin Zollanvari and
               Gil Alterovitz},
  title     = {{SNP} by {SNP} by environment interaction network of alcoholism},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {3},
  pages     = {19:1--19:11},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0403-7},
  doi       = {10.1186/s12918-017-0403-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZollanvariA17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZouWZM17,
  author    = {Quan Zou and
               Shixiang Wan and
               Xiangxiang Zeng and
               Zhanshan (Sam) Ma},
  title     = {Reconstructing evolutionary trees in parallel for massive sequences},
  journal   = {{BMC} Syst. Biol.},
  volume    = {11},
  number    = {6},
  pages     = {15--21},
  year      = {2017},
  url       = {https://doi.org/10.1186/s12918-017-0476-3},
  doi       = {10.1186/s12918-017-0476-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZouWZM17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AndorferHHLMP16,
  author    = {Peter Andorfer and
               Alexander Heuwieser and
               Andreas Heinzel and
               Arno Lukas and
               Bernd Mayer and
               Paul Perco},
  title     = {Vascular endothelial growth factor {A} as predictive marker for mTOR
               inhibition in relapsing high-grade serous ovarian cancer},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {33},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0278-z},
  doi       = {10.1186/s12918-016-0278-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AndorferHHLMP16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BabelB16,
  author    = {Heiko Babel and
               Ilka B. Bischofs},
  title     = {Molecular and cellular factors control signal transduction via switchable
               allosteric modulator proteins (SAMPs)},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {35},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0274-3},
  doi       = {10.1186/s12918-016-0274-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BabelB16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Bains16,
  author    = {William Bains},
  title     = {Low potency toxins reveal dense interaction networks in metabolism},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {19},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0262-7},
  doi       = {10.1186/s12918-016-0262-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Bains16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BeckersDLMBFEW16,
  author    = {Veronique Beckers and
               Lisa Maria Dersch and
               Katrin Lotz and
               Guido Melzer and
               Oliver E. Bl{\"{a}}sing and
               Regine Fuchs and
               Thomas Ehrhardt and
               Christoph Wittmann},
  title     = {\emph{In silico} metabolic network analysis of \emph{Arabidopsis}
               leaves},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {102},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0347-3},
  doi       = {10.1186/s12918-016-0347-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BeckersDLMBFEW16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BianconiBLPCV16,
  author    = {Fortunato Bianconi and
               Elisa Baldelli and
               Vienna Ludovini and
               Emanuel F. Petricoin and
               Lucio Crin{\`{o}} and
               Paolo Valigi},
  title     = {Erratum to: 'Conditional robustness analysis for fragility discovery
               and target identification in biochemical networks and in cancer systems
               biology'},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {24},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0267-2},
  doi       = {10.1186/s12918-016-0267-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BianconiBLPCV16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BoadaRPV16,
  author    = {Yadira Boada and
               Gilberto Reynoso{-}Meza and
               Jes{\'{u}}s Pic{\'{o}} and
               Alejandro Vignoni},
  title     = {Multi-objective optimization framework to obtain model-based guidelines
               for tuning biological synthetic devices: an adaptive network case},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {27},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0269-0},
  doi       = {10.1186/s12918-016-0269-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BoadaRPV16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BorschS16,
  author    = {Anastasiya B{\"{o}}rsch and
               J{\"{o}}rg Schaber},
  title     = {How time delay and network design shape response patterns in biochemical
               negative feedback systems},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {82},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0325-9},
  doi       = {10.1186/s12918-016-0325-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BorschS16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BrubakerBCM16,
  author    = {Douglas Brubaker and
               Alethea Barbaro and
               Mark R. Chance and
               Sam Mesiano},
  title     = {A dynamical systems model of progesterone receptor interactions with
               inflammation in human parturition},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {79},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0320-1},
  doi       = {10.1186/s12918-016-0320-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BrubakerBCM16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BrunkMMZOBCCBP16,
  author    = {Elizabeth Brunk and
               Nathan Mih and
               Jonathan Monk and
               Zhen Zhang and
               Edward J. O'Brien and
               Spencer E. Bliven and
               Ke Chen and
               Roger L. Chang and
               Philip E. Bourne and
               Bernhard O. Palsson},
  title     = {Systems biology of the structural proteome},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {26},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0271-6},
  doi       = {10.1186/s12918-016-0271-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BrunkMMZOBCCBP16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BuddenC16,
  author    = {David M. Budden and
               Edmund J. Crampin},
  title     = {Information theoretic approaches for inference of biological networks
               from continuous-valued data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {89},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0331-y},
  doi       = {10.1186/s12918-016-0331-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BuddenC16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CalderoneFAPACB16,
  author    = {Alberto Calderone and
               Matteo Formenti and
               Federica Aprea and
               Michele Papa and
               Lilia Alberghina and
               Anna Maria Colangelo and
               Paola Bertolazzi},
  title     = {Comparing Alzheimer's and Parkinson's diseases networks using graph
               communities structure},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {25},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0270-7},
  doi       = {10.1186/s12918-016-0270-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CalderoneFAPACB16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CamilloCET16,
  author    = {Barbara Di Camillo and
               Azzurra Carlon and
               Federica Eduati and
               Gianna Maria Toffolo},
  title     = {A rule-based model of insulin signalling pathway},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {38},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0281-4},
  doi       = {10.1186/s12918-016-0281-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CamilloCET16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CatozziDVS16,
  author    = {Simona Catozzi and
               Juan Pablo Di{-}Bella and
               Alejandra C. Ventura and
               Jacques{-}A. Sepulchre},
  title     = {Signaling cascades transmit information downstream and upstream but
               unlikely simultaneously},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {84},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0303-2},
  doi       = {10.1186/s12918-016-0303-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CatozziDVS16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChaeLNK16,
  author    = {Heejoon Chae and
               Sangseon Lee and
               Kenneth P. Nephew and
               Sun Kim},
  title     = {Subtype-specific CpG island shore methylation and mutation patterns
               in 30 breast cancer cell lines},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {4},
  pages     = {433--443},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0356-2},
  doi       = {10.1186/s12918-016-0356-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChaeLNK16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChangHLTTCW16,
  author    = {Hsin{-}Chuan Chang and
               Tsung{-}Han Hsieh and
               Yi{-}Wei Lee and
               Cheng{-}Fong Tsai and
               Ya{-}Ni Tsai and
               Cheng{-}Chung Cheng and
               Hsei{-}Wei Wang},
  title     = {c-Myc and viral cofactor Kaposin {B} co-operate to elicit angiogenesis
               through modulating miRNome traits of endothelial cells},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-1}},
  pages     = {1},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-015-0242-3},
  doi       = {10.1186/s12918-015-0242-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChangHLTTCW16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChenGHPBH16,
  author    = {Jin Chen and
               Jose A. Gomez and
               Kai H{\"{o}}ffner and
               Poonam Phalak and
               Paul I. Barton and
               Michael A. Henson},
  title     = {Spatiotemporal modeling of microbial metabolism},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {21},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0259-2},
  doi       = {10.1186/s12918-016-0259-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChenGHPBH16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChenL16,
  author    = {Bor{-}Sen Chen and
               Cheng{-}Wei Li},
  title     = {Constructing an integrated genetic and epigenetic cellular network
               for whole cellular mechanism using high-throughput next-generation
               sequencing data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {18},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0256-5},
  doi       = {10.1186/s12918-016-0256-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChenL16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChenL16a,
  author    = {Pei Chen and
               Yongjun Li},
  title     = {The decrease of consistence probability: at the crossroad of catastrophic
               transition of a biological system},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-2}},
  pages     = {50},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0295-y},
  doi       = {10.1186/s12918-016-0295-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChenL16a.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChengLSZ16,
  author    = {Feixiong Cheng and
               Chuang Liu and
               Bairong Shen and
               Zhongming Zhao},
  title     = {Investigating cellular network heterogeneity and modularity in cancer:
               a network entropy and unbalanced motif approach},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-3}},
  pages     = {65},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0309-9},
  doi       = {10.1186/s12918-016-0309-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChengLSZ16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChoPLLC16,
  author    = {Sung{-}Hwan Cho and
               Sang{-}Min Park and
               Hosung Lee and
               Hwang{-}Yeol Lee and
               Kwang{-}Hyun Cho},
  title     = {Attractor landscape analysis of colorectal tumorigenesis and its reversion},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {96},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0341-9},
  doi       = {10.1186/s12918-016-0341-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChoPLLC16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChooC16,
  author    = {Sang{-}Mok Choo and
               Kwang{-}Hyun Cho},
  title     = {An efficient algorithm for identifying primary phenotype attractors
               of a large-scale Boolean network},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {95},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0338-4},
  doi       = {10.1186/s12918-016-0338-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChooC16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/DaiWMLJL16,
  author    = {Wentao Dai and
               Aiping Wu and
               Liang{-}Xiao Ma and
               Yi{-}Xue Li and
               Taijiao Jiang and
               Yuan{-}Yuan Li},
  title     = {A novel index of protein-protein interface propensity improves interface
               residue recognition},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {4},
  pages     = {381--392},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0351-7},
  doi       = {10.1186/s12918-016-0351-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/DaiWMLJL16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Doeschl-WilsonW16,
  author    = {Andrea Doeschl{-}Wilson and
               Alison Wilson and
               Jens Nielsen and
               Hans Nauwynck and
               Alan L. Archibald and
               Tahar Ait{-}Ali},
  title     = {Combining laboratory and mathematical models to infer mechanisms underlying
               kinetic changes in macrophage susceptibility to an {RNA} virus},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {101},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0345-5},
  doi       = {10.1186/s12918-016-0345-5},
  timestamp = {Sun, 30 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Doeschl-WilsonW16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/DongWL16,
  author    = {Qiwen Dong and
               Kai Wang and
               Xuan Liu},
  title     = {Identifying the missing proteins in human proteome by biological language
               model},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {4},
  pages     = {393--399},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0352-6},
  doi       = {10.1186/s12918-016-0352-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/DongWL16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/DuHYKRIMSS16,
  author    = {Lei Du and
               Heng Huang and
               Jingwen Yan and
               Sungeun Kim and
               Shannon L. Risacher and
               Mark Inlow and
               Jason H. Moore and
               Andrew J. Saykin and
               Li Shen},
  title     = {Structured sparse {CCA} for brain imaging genetics via graph {OSCAR}},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-3}},
  pages     = {68},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0312-1},
  doi       = {10.1186/s12918-016-0312-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/DuHYKRIMSS16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/DuZKDTZRAP16,
  author    = {Bin Du and
               Daniel C. Zielinski and
               Erol S. Kavvas and
               Andreas Dr{\"{a}}ger and
               Justin Tan and
               Zhen Zhang and
               Kayla E. Ruggiero and
               Garri A. Arzumanyan and
               Bernhard O. Palsson},
  title     = {Evaluation of rate law approximations in bottom-up kinetic models
               of metabolism},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {40},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0283-2},
  doi       = {10.1186/s12918-016-0283-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/DuZKDTZRAP16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/EkennaTA16,
  author    = {Chinwe Ekenna and
               Shawna L. Thomas and
               Nancy M. Amato},
  title     = {Adaptive local learning in sampling based motion planning for protein
               folding},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-2}},
  pages     = {49},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0297-9},
  doi       = {10.1186/s12918-016-0297-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/EkennaTA16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FiedlerRTHH16,
  author    = {Anna Fiedler and
               Sebastian Raeth and
               Fabian J. Theis and
               Angelika Hausser and
               Jan Hasenauer},
  title     = {Tailored parameter optimization methods for ordinary differential
               equation models with steady-state constraints},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {80},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0319-7},
  doi       = {10.1186/s12918-016-0319-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FiedlerRTHH16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FleckPC16,
  author    = {Julia Lima Fleck and
               Ana B. Pavel and
               Christos G. Cassandras},
  title     = {Integrating mutation and gene expression cross-sectional data to infer
               cancer progression},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {12},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0255-6},
  doi       = {10.1186/s12918-016-0255-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FleckPC16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FoladorCSFSGGBA16,
  author    = {Edson Luiz Folador and
               Paulo Vin{\'{\i}}cius Sanches Daltro de Carvalho and
               Wanderson Marques Silva and
               Rafaela Salgado Ferreira and
               Artur Silva and
               M. Michael Gromiha and
               Preetam Ghosh and
               Debmalya Barh and
               Vasco Azevedo and
               Richard R{\"{o}}ttger},
  title     = {\emph{In silico} identification of essential proteins in \emph{Corynebacterium
               pseudotuberculosis} based on protein-protein interaction networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {103:1--103:9},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0346-4},
  doi       = {10.1186/s12918-016-0346-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FoladorCSFSGGBA16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GanA16,
  author    = {Xiao Gan and
               R{\'{e}}ka Albert},
  title     = {Analysis of a dynamic model of guard cell signaling reveals the stability
               of signal propagation},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {78},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0327-7},
  doi       = {10.1186/s12918-016-0327-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GanA16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GaoAMPGC16,
  author    = {Xuefeng Gao and
               Christophe Arpin and
               Jacqueline Marvel and
               Sotiris A. Prokopiou and
               Olivier Gandrillon and
               Fabien Crauste},
  title     = {{IL-2} sensitivity and exogenous {IL-2} concentration gradient tune
               the productive contact duration of CD8\({}^{\mbox{+}}\) {T} cell-APC:
               a multiscale modeling study},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {77},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0323-y},
  doi       = {10.1186/s12918-016-0323-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GaoAMPGC16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GhazanfarBOLY16,
  author    = {Shila Ghazanfar and
               Adam J. Bisogni and
               John T. Ormerod and
               David M. Lin and
               Jean Yee Hwa Yang},
  title     = {Integrated single cell data analysis reveals cell specific networks
               and novel coactivation markers},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-5}},
  pages     = {11--24},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0370-4},
  doi       = {10.1186/s12918-016-0370-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GhazanfarBOLY16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HaoF16,
  author    = {Wenrui Hao and
               Avner Friedman},
  title     = {Mathematical model on Alzheimer's disease},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {108:1--108:18},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0348-2},
  doi       = {10.1186/s12918-016-0348-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HaoF16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HoardJMT16,
  author    = {Brittany R. Hoard and
               Bruna Jacobson and
               Kasra Manavi and
               Lydia Tapia},
  title     = {Extending rule-based methods to model molecular geometry and 3D model
               resolution},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-2}},
  pages     = {48},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0294-z},
  doi       = {10.1186/s12918-016-0294-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HoardJMT16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HosseiniW16,
  author    = {Sayed{-}Rzgar Hosseini and
               Andreas Wagner},
  title     = {The potential for non-adaptive origins of evolutionary innovations
               in central carbon metabolism},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {97},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0343-7},
  doi       = {10.1186/s12918-016-0343-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HosseiniW16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HsuCCHC16,
  author    = {Yu{-}Ching Hsu and
               Yu{-}Chiao Chiu and
               Yidong Chen and
               Tzu{-}Hung Hsiao and
               Eric Y. Chuang},
  title     = {A simple gene set-based method accurately predicts the synergy of
               drug pairs},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-3}},
  pages     = {66},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0310-3},
  doi       = {10.1186/s12918-016-0310-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HsuCCHC16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HuangLW16,
  author    = {Lei Huang and
               Li Liao and
               Cathy H. Wu},
  title     = {Protein-protein interaction prediction based on multiple kernels and
               partial network with linear programming},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-2}},
  pages     = {45},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0296-x},
  doi       = {10.1186/s12918-016-0296-x},
  timestamp = {Sat, 30 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HuangLW16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HuangSKJWL16,
  author    = {Chien{-}Hsun Huang and
               Min{-}Gang Su and
               Hui{-}Ju Kao and
               Jhih{-}Hua Jhong and
               Shun{-}Long Weng and
               Tzong{-}Yi Lee},
  title     = {UbiSite: incorporating two-layered machine learning method with substrate
               motifs to predict ubiquitin-conjugation site on lysines},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-1}},
  pages     = {6},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-015-0246-z},
  doi       = {10.1186/s12918-015-0246-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HuangSKJWL16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HuangWLW16,
  author    = {Kai{-}Yao Huang and
               Julia Tzu{-}Ya Weng and
               Tzong{-}Yi Lee and
               Shun{-}Long Weng},
  title     = {A new scheme to discover functional associations and regulatory networks
               of {E3} ubiquitin ligases},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-1}},
  pages     = {3},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-015-0244-1},
  doi       = {10.1186/s12918-015-0244-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HuangWLW16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HuangWZ16,
  author    = {Yan Huang and
               Li Wang and
               Lin{-}sen Zan},
  title     = {{ARN:} analysis and prediction by adipogenic professional database},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {57},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0321-0},
  doi       = {10.1186/s12918-016-0321-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HuangWZ16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HuangYCY16,
  author    = {Yu{-}An Huang and
               Zhu{-}Hong You and
               Xing Chen and
               Guiying Yan},
  title     = {Improved protein-protein interactions prediction via weighted sparse
               representation model combining continuous wavelet descriptor and PseAA
               composition},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {4},
  pages     = {485--494},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0360-6},
  doi       = {10.1186/s12918-016-0360-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HuangYCY16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/IversonGMWGGZ16,
  author    = {Andrew Iverson and
               Erin Garza and
               Ryan Manow and
               Jinhua Wang and
               Yuanyuan Gao and
               Scott Grayburn and
               Shengde Zhou},
  title     = {Engineering a synthetic anaerobic respiration for reduction of xylose
               to xylitol using {NADH} output of glucose catabolism by \emph{Escherichia
               coli} {AI21}},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {31},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0276-1},
  doi       = {10.1186/s12918-016-0276-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/IversonGMWGGZ16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JankowskiOMT16,
  author    = {Aleksander Jankowski and
               Paulina Obara and
               Utsav Mathur and
               Jerzy Tiuryn},
  title     = {Enhanceosome transcription factors preferentially dimerize with high
               mobility group proteins},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {14},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0258-3},
  doi       = {10.1186/s12918-016-0258-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JankowskiOMT16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JeanquartierJCH16,
  author    = {Fleur Jeanquartier and
               Claire Jean{-}Quartier and
               David Cemernek and
               Andreas Holzinger},
  title     = {In silico modeling for tumor growth visualization},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {59},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0318-8},
  doi       = {10.1186/s12918-016-0318-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JeanquartierJCH16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JermusykMR16,
  author    = {Ashley A. Jermusyk and
               Nicholas P. Murphy and
               Gregory T. Reeves},
  title     = {Analyzing negative feedback using a synthetic gene network expressed
               in the \emph{Drosophila melanogaster} embryo},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {85},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0330-z},
  doi       = {10.1186/s12918-016-0330-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JermusykMR16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JonakKSJAP16,
  author    = {Katarzyna Jonak and
               Monika Kurpas and
               Katarzyna Szoltysek and
               Patryk Janus and
               Agata Abramowicz and
               Krzysztof Puszynski},
  title     = {A novel mathematical model of ATM/p53/NF- \emph{{\(\kappa\)}}B pathways
               points to the importance of the {DDR} switch-off mechanisms},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {75},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0293-0},
  doi       = {10.1186/s12918-016-0293-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JonakKSJAP16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JonakKSJAP16a,
  author    = {Katarzyna Jonak and
               Monika Kurpas and
               Katarzyna Szoltysek and
               Patryk Janus and
               Agata Abramowicz and
               Krzysztof Puszynski},
  title     = {Erratum to: {A} novel mathematical model of ATM/p53/NF-{\(\kappa\)}B
               pathways points to the importance of the {DDR} switch-off mechanisms},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {99},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0340-x},
  doi       = {10.1186/s12918-016-0340-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JonakKSJAP16a.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JuarezLFGJAMM16,
  author    = {Edwin F. Juarez and
               Roy Lau and
               Samuel H. Friedman and
               Ahmadreza Ghaffarizadeh and
               Edmond A. Jonckheere and
               David B. Agus and
               Shannon M. Mumenthaler and
               Paul Macklin},
  title     = {Quantifying differences in cell line population dynamics using CellPD},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {92},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0337-5},
  doi       = {10.1186/s12918-016-0337-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JuarezLFGJAMM16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JungASKKJK16,
  author    = {Inuk Jung and
               Hongryul Ahn and
               Seon{-}Ju Shin and
               Jukon Kim and
               Hawk{-}Bin Kwon and
               Woosuk Jung and
               Sun Kim},
  title     = {Clustering and evolutionary analysis of small RNAs identify regulatory
               siRNA clusters induced under drought stress in rice},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {4},
  pages     = {423--432},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0355-3},
  doi       = {10.1186/s12918-016-0355-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JungASKKJK16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KimTFHGC16,
  author    = {Seong Gon Kim and
               Nawanol Theera{-}Ampornpunt and
               Chih{-}Hao Fang and
               Mrudul Harwani and
               Ananth Grama and
               Somali Chaterji},
  title     = {Opening up the blackbox: an interpretable deep neural network-based
               classifier for cell-type specific enhancer predictions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-2}},
  pages     = {54},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0302-3},
  doi       = {10.1186/s12918-016-0302-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KimTFHGC16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KolczykC16,
  author    = {Katrin Kolczyk and
               Carsten Conradi},
  title     = {Challenges in horizontal model integration},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {28},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0266-3},
  doi       = {10.1186/s12918-016-0266-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KolczykC16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Kwon16,
  author    = {Yung{-}Keun Kwon},
  title     = {Properties of Boolean dynamics by node classification using feedback
               loops in a network},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {83},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0322-z},
  doi       = {10.1186/s12918-016-0322-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Kwon16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LeeL16,
  author    = {Min{-}Su Lee and
               HyungJune Lee},
  title     = {DMirNet: Inferring direct microRNA-mRNA association networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-5}},
  pages     = {51--63},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0373-1},
  doi       = {10.1186/s12918-016-0373-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LeeL16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LegrandLRVG16,
  author    = {Jonathan Legrand and
               Jean{-}Benoist L{\'{e}}ger and
               St{\'{e}}phane Robin and
               Teva Vernoux and
               Yann Gu{\'{e}}don},
  title     = {Modelling the influence of dimerisation sequence dissimilarities on
               the auxin signalling network},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {22},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0254-7},
  doi       = {10.1186/s12918-016-0254-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LegrandLRVG16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LeniveKS16,
  author    = {Oleg Lenive and
               Paul D. W. Kirk and
               Michael P. H. Stumpf},
  title     = {Inferring extrinsic noise from single-cell gene expression data using
               approximate Bayesian computation},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {81},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0324-x},
  doi       = {10.1186/s12918-016-0324-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LeniveKS16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LeonWFB16,
  author    = {Miriam Leon and
               Mae L. Woods and
               Alex J. H. Fedorec and
               Chris P. Barnes},
  title     = {A computational method for the investigation of multistable systems
               and its application to genetic switches},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {130:1--130:12},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0375-z},
  doi       = {10.1186/s12918-016-0375-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LeonWFB16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LewisBCMC16,
  author    = {Joanna Lewis and
               Charles E. Breeze and
               Jane Charlesworth and
               Oliver J. Maclaren and
               Jonathan Cooper},
  title     = {Where next for the reproducibility agenda in computational biology?},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {52},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0288-x},
  doi       = {10.1186/s12918-016-0288-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LewisBCMC16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiCCL16,
  author    = {Ru{-}Dong Li and
               Hui Cheng and
               Tao Cheng and
               Lei Liu},
  title     = {Digitalization of a non-irradiated acute myeloid leukemia model},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-3}},
  pages     = {64},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0308-x},
  doi       = {10.1186/s12918-016-0308-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiCCL16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LinPHCPGZL16,
  author    = {Mingyan Lin and
               Erika Pedrosa and
               Anastasia Hrabovsky and
               Jian Chen and
               Benjamin R. Puliafito and
               Stephanie R. Gilbert and
               Deyou Zheng and
               Herbert M. Lachman},
  title     = {Integrative transcriptome network analysis of iPSC-derived neurons
               from schizophrenia and schizoaffective disorder patients with 22q11.2
               deletion},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {105:1--105:20},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0366-0},
  doi       = {10.1186/s12918-016-0366-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LinPHCPGZL16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuGXGLZ16,
  author    = {Hui Liu and
               Mengmeng Guo and
               Ting Xue and
               Jihong Guan and
               Libo Luo and
               Ziheng Zhuang},
  title     = {Screening lifespan-extending drugs in Caenorhabditis elegans via label
               propagation on drug-protein networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {4},
  pages     = {509--519},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0362-4},
  doi       = {10.1186/s12918-016-0362-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuGXGLZ16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuJGYWL16,
  author    = {Cong Liu and
               Jianping Jiang and
               Jianlei Gu and
               Zhangsheng Yu and
               Tao Wang and
               Hui Lu},
  title     = {High-dimensional omics data analysis using a variable screening protocol
               with prior knowledge integration {(SKI)}},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {4},
  pages     = {457--464},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0358-0},
  doi       = {10.1186/s12918-016-0358-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuJGYWL16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuLAS16,
  author    = {Yongchao Liu and
               Martin Loewer and
               Srinivas Aluru and
               Bertil Schmidt},
  title     = {SNVSniffer: an integrated caller for germline and somatic single-nucleotide
               and indel mutations},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-2}},
  pages     = {47},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0300-5},
  doi       = {10.1186/s12918-016-0300-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuLAS16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuQLJ16,
  author    = {Rongjie Liu and
               Chunjiang Qian and
               Shuqian Liu and
               Yufang Jin},
  title     = {State feedback control design for Boolean networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-3}},
  pages     = {70},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0314-z},
  doi       = {10.1186/s12918-016-0314-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuQLJ16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LuckW16,
  author    = {Alexander L{\"{u}}ck and
               Verena Wolf},
  title     = {Generalized method of moments for estimating parameters of stochastic
               reaction networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {98:1--98:12},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0342-8},
  doi       = {10.1186/s12918-016-0342-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LuckW16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MangelBA16,
  author    = {Marc Mangel and
               Michael B. Bonsall and
               Aziz Aboobaker},
  title     = {Feedback control in planarian stem cell systems},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {17},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0261-8},
  doi       = {10.1186/s12918-016-0261-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MangelBA16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MangericaoPZ16,
  author    = {Tatiana C. Mangericao and
               Zhanhao Peng and
               Xuegong Zhang},
  title     = {Computational prediction of {CRISPR} cassettes in gut metagenome samples
               from Chinese type-2 diabetic patients and healthy controls},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-1}},
  pages     = {5},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-015-0248-x},
  doi       = {10.1186/s12918-015-0248-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MangericaoPZ16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MartinsEWM16,
  author    = {Teresa Vaz Martins and
               Matthew J. Evans and
               Derin B. Wysham and
               Richard J. Morris},
  title     = {Nuclear pores enable sustained perinuclear calcium oscillations},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {55},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0289-9},
  doi       = {10.1186/s12918-016-0289-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MartinsEWM16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MartyushenkoJGA16,
  author    = {Nikolay Martyushenko and
               Sigurd Hagen Johansen and
               Cheol{-}Min Ghim and
               Eivind Almaas},
  title     = {Hypothetical biomolecular probe based on a genetic switch with tunable
               symmetry and stability},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {39},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0279-y},
  doi       = {10.1186/s12918-016-0279-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MartyushenkoJGA16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/McDermottMGEJBN16,
  author    = {Jason E. McDermott and
               Hugh D. Mitchell and
               Lisa E. Gralinski and
               Amie J. Eisfeld and
               Laurence Josset and
               Armand Bankhead III and
               Gabriele Neumann and
               Susan C. Tilton and
               Alexandra Sch{\"{a}}fer and
               Chengjun Li and
               Shufang Fan and
               Shannon K. McWeeney and
               Ralph S. Baric and
               Michael G. Katze and
               Katrina M. Waters},
  title     = {The effect of inhibition of {PP1} and TNF{\(\alpha\)} signaling on
               pathogenesis of {SARS} coronavirus},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {93},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0336-6},
  doi       = {10.1186/s12918-016-0336-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/McDermottMGEJBN16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/McKenzieKSWZ16,
  author    = {Andrew McKenzie and
               Igor Katsyv and
               Won{-}Min Song and
               Minghui Wang and
               Bin Zhang},
  title     = {{DGCA:} {A} comprehensive {R} package for Differential Gene Correlation
               Analysis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {106:1--106:25},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0349-1},
  doi       = {10.1186/s12918-016-0349-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/McKenzieKSWZ16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MoralesBVPL16,
  author    = {Yeimy Morales and
               Gabriel Bosque and
               Josep Veh{\'{\i}} and
               Jes{\'{u}}s Pic{\'{o}} and
               Francisco Llaneras},
  title     = {{PFA} toolbox: a {MATLAB} tool for Metabolic Flux Analysis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {46},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0284-1},
  doi       = {10.1186/s12918-016-0284-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MoralesBVPL16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MurrugarraVAL16,
  author    = {David Murrugarra and
               Alan Veliz{-}Cuba and
               Boris Aguilar and
               Reinhard C. Laubenbacher},
  title     = {Identification of control targets in Boolean molecular network models
               via computational algebra},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {94},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0332-x},
  doi       = {10.1186/s12918-016-0332-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MurrugarraVAL16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/NakicSPS16,
  author    = {Zrinka Raguz Nakic and
               Gerhard Seisenbacher and
               Francesc Posas and
               Uwe Sauer},
  title     = {Untargeted metabolomics unravels functionalities of phosphorylation
               sites in Saccharomyces cerevisiae},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {104:1--104:15},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0350-8},
  doi       = {10.1186/s12918-016-0350-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/NakicSPS16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/NayakBD16,
  author    = {Losiana Nayak and
               Nitai P. Bhattacharyya and
               Rajat K. De},
  title     = {Wnt signal transduction pathways: modules, development and evolution},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-2}},
  pages     = {44},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0299-7},
  doi       = {10.1186/s12918-016-0299-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/NayakBD16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/NazariehWWHH16,
  author    = {Maryam Nazarieh and
               Andreas Wiese and
               Thorsten Will and
               Mohamed Hamed and
               Volkhard Helms},
  title     = {Identification of key player genes in gene regulatory networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {88},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0329-5},
  doi       = {10.1186/s12918-016-0329-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/NazariehWWHH16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/NguyenHST16,
  author    = {Binh P. Nguyen and
               Hans Heemskerk and
               Peter T. C. So and
               Lisa Tucker{-}Kellogg},
  title     = {Superpixel-based segmentation of muscle fibers in multi-channel microscopy},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-5}},
  pages     = {39--50},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0372-2},
  doi       = {10.1186/s12918-016-0372-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/NguyenHST16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/NimmegeersTLI16,
  author    = {Philippe Nimmegeers and
               Dries Telen and
               Filip Logist and
               Jan F. M. Van Impe},
  title     = {Dynamic optimization of biological networks under parametric uncertainty},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {86},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0328-6},
  doi       = {10.1186/s12918-016-0328-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/NimmegeersTLI16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/OmonyMSB16,
  author    = {Jimmy Omony and
               Astrid R. Mach{-}Aigner and
               Gerrit van Straten and
               Anton J. B. van Boxtel},
  title     = {Quantitative modeling and analytic assessment of the transcription
               dynamics of the XlnR regulon in \emph{Aspergillus niger}},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {13},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0257-4},
  doi       = {10.1186/s12918-016-0257-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/OmonyMSB16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/OremlandMBLML16,
  author    = {Matthew Oremland and
               Kathryn R. Michels and
               Alexandra M. Bettina and
               Christopher Lawrence and
               Borna Mehrad and
               Reinhard C. Laubenbacher},
  title     = {A computational model of invasive aspergillosis in the lung and the
               role of iron},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {34},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0275-2},
  doi       = {10.1186/s12918-016-0275-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/OremlandMBLML16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/OuzounoglouDS16,
  author    = {Eleftherios Ouzounoglou and
               Dimitra D. Dionysiou and
               Georgios S. Stamatakos},
  title     = {Differentiation resistance through altered retinoblastoma protein
               function in acute lymphoblastic leukemia: in silico modeling of the
               deregulations in the {G1/S} restriction point pathway},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {23},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0264-5},
  doi       = {10.1186/s12918-016-0264-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/OuzounoglouDS16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PavelSR16,
  author    = {Ana B. Pavel and
               Dmitriy Sonkin and
               Anupama Reddy},
  title     = {Integrative modeling of multi-omics data to identify cancer drivers
               and infer patient-specific gene activity},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {16},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0260-9},
  doi       = {10.1186/s12918-016-0260-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PavelSR16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PeschZ16,
  author    = {Robert Pesch and
               Ralf Zimmer},
  title     = {Cross-species Conservation of context-specific networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {76},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0304-1},
  doi       = {10.1186/s12918-016-0304-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PeschZ16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PetereitSHS16,
  author    = {Juli Petereit and
               Sebastian Smith and
               Frederick C. Harris Jr. and
               Karen Schlauch},
  title     = {petal: Co-expression network modelling in {R}},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-2}},
  pages     = {51},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0298-8},
  doi       = {10.1186/s12918-016-0298-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PetereitSHS16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PhalakCCH16,
  author    = {Poonam Phalak and
               Jin Chen and
               Ross P. Carlson and
               Michael A. Henson},
  title     = {Metabolic modeling of a chronic wound biofilm consortium predicts
               spatial partitioning of bacterial species},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {90},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0334-8},
  doi       = {10.1186/s12918-016-0334-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PhalakCCH16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PlattBZP16,
  author    = {Daniel E. Platt and
               Saugata Basu and
               Pierre A. Zalloua and
               Laxmi Parida},
  title     = {Characterizing redescriptions using persistent homology to isolate
               genetic pathways contributing to pathogenesis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-1}},
  pages     = {10},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-015-0251-2},
  doi       = {10.1186/s12918-015-0251-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PlattBZP16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/QinLSL16,
  author    = {Wenyi Qin and
               Cong Liu and
               Monsheel Sodhi and
               Hui Lu},
  title     = {Meta-analysis of sex differences in gene expression in schizophrenia},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-1}},
  pages     = {9},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-015-0250-3},
  doi       = {10.1186/s12918-015-0250-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/QinLSL16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RenWHAK16,
  author    = {Yuanfang Ren and
               Qiyao Wang and
               Md Mahmudul Hasan and
               Ahmet Ay and
               Tamer Kahveci},
  title     = {Identifying the topology of signaling networks from partial RNAi data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-2}},
  pages     = {53},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0301-4},
  doi       = {10.1186/s12918-016-0301-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RenWHAK16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RohD16,
  author    = {Min K. Roh and
               Bernie J. Daigle Jr.},
  title     = {SParSE++: improved event-based stochastic parameter search},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {109:1--109:15},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0367-z},
  doi       = {10.1186/s12918-016-0367-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RohD16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RougnyFCP16,
  author    = {Adrien Rougny and
               Christine Froidevaux and
               Laurence Calzone and
               Lo{\"{\i}}c Paulev{\'{e}}},
  title     = {Qualitative dynamics semantics for {SBGN} process description},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {42},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0285-0},
  doi       = {10.1186/s12918-016-0285-0},
  timestamp = {Mon, 15 Jun 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RougnyFCP16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SalakhievaSCUEW16,
  author    = {Diana V. Salakhieva and
               Ildar I. Sadreev and
               Michael Z. Q. Chen and
               Yoshinori Umezawa and
               Aleksandr I. Evstifeev and
               Gavin I. Welsh and
               Nikolay V. Kotov},
  title     = {Kinetic regulation of multi-ligand binding proteins},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {32},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0277-0},
  doi       = {10.1186/s12918-016-0277-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SalakhievaSCUEW16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SanchezC16,
  author    = {Lucas S{\'{a}}nchez and
               Claudine Chaouiya},
  title     = {Primary sex determination of placental mammals: a modelling study
               uncovers dynamical developmental constraints in the formation of Sertoli
               and granulosa cells},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {37},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0282-3},
  doi       = {10.1186/s12918-016-0282-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SanchezC16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Sands16,
  author    = {Timothy R. Sands},
  title     = {Annual Acknowledgement of Reviewers},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {29},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0272-5},
  doi       = {10.1186/s12918-016-0272-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Sands16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SchivoSVKPPL16,
  author    = {Stefano Schivo and
               Jetse Scholma and
               Paul E. van der Vet and
               Marcel Karperien and
               Janine N. Post and
               Jaco van de Pol and
               Rom Langerak},
  title     = {Modelling with {ANIMO:} between fuzzy logic and differential equations},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {56},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0286-z},
  doi       = {10.1186/s12918-016-0286-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SchivoSVKPPL16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SmithHWPHBSWZBF16,
  author    = {Robert W. Smith and
               Britta Helwig and
               Adrie H. Westphal and
               Eran Pel and
               Maximilian H{\"{o}}rner and
               Hannes M. Beyer and
               Sophia L. Samodelov and
               Wilfried Weber and
               Matias D. Zurbriggen and
               Jan Willem Borst and
               Christian Fleck},
  title     = {Unearthing the transition rates between photoreceptor conformers},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {110:1--110:15},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0368-y},
  doi       = {10.1186/s12918-016-0368-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SmithHWPHBSWZBF16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SokolenkoQA16,
  author    = {Stanislav Sokolenko and
               Marco Quattrociocchi and
               Marc Aucoin},
  title     = {Identifying model error in metabolic flux analysis - a generalized
               least squares approach},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {91},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0335-7},
  doi       = {10.1186/s12918-016-0335-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SokolenkoQA16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SunHVH16,
  author    = {Yahui Sun and
               Pathima Nusrath Hameed and
               Karin Verspoor and
               Saman K. Halgamuge},
  title     = {A physarum-inspired prize-collecting steiner tree approach to identify
               subnetworks for drug repositioning},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-5}},
  pages     = {25--38},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0371-3},
  doi       = {10.1186/s12918-016-0371-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SunHVH16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SunZZCZYZ16,
  author    = {Xiaoqiang Sun and
               Jiajun Zhang and
               Qi Zhao and
               Xing Chen and
               Wenbo Zhu and
               Guangmei Yan and
               Tianshou Zhou},
  title     = {Stochastic modeling suggests that noise reduces differentiation efficiency
               by inducing a heterogeneous drug response in glioma differentiation
               therapy},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {73},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0316-x},
  doi       = {10.1186/s12918-016-0316-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SunZZCZYZ16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TanevskiTD16,
  author    = {Jovan Tanevski and
               Ljupco Todorovski and
               Saso Dzeroski},
  title     = {Learning stochastic process-based models of dynamical systems from
               knowledge and data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {30},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0273-4},
  doi       = {10.1186/s12918-016-0273-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TanevskiTD16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ThijssenDHW16,
  author    = {Bram Thijssen and
               T. M. H. Dijkstra and
               Tom Heskes and
               Lodewyk F. A. Wessels},
  title     = {{BCM:} toolkit for Bayesian analysis of Computational Models using
               samplers},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {100},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0339-3},
  doi       = {10.1186/s12918-016-0339-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ThijssenDHW16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TianMK16,
  author    = {Dan Tian and
               Isaiah Mitchell and
               Pamela K. Kreeger},
  title     = {Quantitative analysis of insulin-like growth factor 2 receptor and
               insulin-like growth factor binding proteins to identify control mechanisms
               for insulin-like growth factor 1 receptor phosphorylation},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {15},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0263-6},
  doi       = {10.1186/s12918-016-0263-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TianMK16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TianWGLT16,
  author    = {Zhen Tian and
               Chunyu Wang and
               Maozu Guo and
               Xiaoyan Liu and
               Zhixia Teng},
  title     = {An improved method for functional similarity analysis of genes based
               on Gene Ontology},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {4},
  pages     = {465--484},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0359-z},
  doi       = {10.1186/s12918-016-0359-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TianWGLT16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TorresA16,
  author    = {N{\'{u}}ria Ballber Torres and
               Claudio Altafini},
  title     = {Drug combinatorics and side effect estimation on the signed human
               drug-target network},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {74},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0326-8},
  doi       = {10.1186/s12918-016-0326-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TorresA16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TruongTK16,
  author    = {Cong{-}Doan Truong and
               Tien{-}Dzung Tran and
               Yung{-}Keun Kwon},
  title     = {{MORO:} a Cytoscape app for relationship analysis between modularity
               and robustness in large-scale biological networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {4},
  pages     = {521--530},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0363-3},
  doi       = {10.1186/s12918-016-0363-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TruongTK16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TycHHPKK16,
  author    = {Katarzyna M. Tyc and
               Sanna E. Herwald and
               Jennifer A. Hogan and
               Jessica V. Pierce and
               Edda Klipp and
               Carol A. Kumamoto},
  title     = {The game theory of \emph{Candida albicans} colonization dynamics reveals
               host status-responsive gene expression},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {20},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0268-1},
  doi       = {10.1186/s12918-016-0268-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TycHHPKK16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ValeroMFHGG16,
  author    = {Edelmira Valero and
               Hermenegilda Maci{\`{a}} and
               Ildefonso M. De la Fuente and
               Jos{\'{e}}{-}Antonio Hern{\'{a}}ndez and
               Mar{\'{\i}}a{-}Isabel Gonz{\'{a}}lez{-}S{\'{a}}nchez and
               Francisco Garc{\'{\i}}a{-}Carmona},
  title     = {Modeling the ascorbate-glutathione cycle in chloroplasts under light/dark
               conditions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {11},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-015-0239-y},
  doi       = {10.1186/s12918-015-0239-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ValeroMFHGG16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/VuralWG16,
  author    = {Suleyman Vural and
               Xiaosheng Wang and
               Chittibabu Guda},
  title     = {Classification of breast cancer patients using somatic mutation profiles
               and machine learning approaches},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-3}},
  pages     = {62},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0306-z},
  doi       = {10.1186/s12918-016-0306-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/VuralWG16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WallqvistFTYR16,
  author    = {Anders Wallqvist and
               Xin Fang and
               Shivendra G. Tewari and
               Ping Ye and
               Jaques Reifman},
  title     = {Metabolic host responses to malarial infection during the intraerythrocytic
               developmental cycle},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {58},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0291-2},
  doi       = {10.1186/s12918-016-0291-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WallqvistFTYR16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WalshSZRDS16,
  author    = {Jesse R. Walsh and
               Mary L. Schaeffer and
               Peifen Zhang and
               Seung Yon Rhee and
               Julie A. Dickerson and
               Taner Z. Sen},
  title     = {The quality of metabolic pathway resources depends on initial enzymatic
               function assignments: a case for maize},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {129:1--129:9},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0369-x},
  doi       = {10.1186/s12918-016-0369-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WalshSZRDS16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WanABYRAL16,
  author    = {Ying{-}Wooi Wan and
               Genevera I. Allen and
               Yulia Baker and
               Eunho Yang and
               Pradeep Ravikumar and
               Matthew Anderson and
               Zhandong Liu},
  title     = {{XMRF:} an {R} package to fit Markov Networks to high-throughput genetics
               data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-3}},
  pages     = {69},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0313-0},
  doi       = {10.1186/s12918-016-0313-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WanABYRAL16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WangHXL16,
  author    = {Yin Wang and
               Tao Huang and
               Lu Xie and
               Lei Liu},
  title     = {Integrative analysis of methylation and transcriptional profiles to
               predict aging and construct aging specific cross-tissue networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {4},
  pages     = {413--421},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0354-4},
  doi       = {10.1186/s12918-016-0354-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WangHXL16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WangLM16,
  author    = {Yulin Wang and
               Na Lu and
               Hongyu Miao},
  title     = {Structural identifiability of cyclic graphical models of biological
               networks with latent variables},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {41},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0287-y},
  doi       = {10.1186/s12918-016-0287-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WangLM16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WeberDMGND16,
  author    = {Tom S. Weber and
               Mark Dukes and
               Denise C. Miles and
               Stefan P. Glaser and
               Shalin H. Naik and
               Ken R. Duffy},
  title     = {Site-specific recombinatorics: in situ cellular barcoding with the
               Cre Lox system},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {43},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0290-3},
  doi       = {10.1186/s12918-016-0290-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WeberDMGND16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WilmsC16,
  author    = {Ines Wilms and
               Christophe Croux},
  title     = {Robust sparse canonical correlation analysis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {72},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0317-9},
  doi       = {10.1186/s12918-016-0317-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WilmsC16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WuLCYLL16,
  author    = {Su{-}Juan Wu and
               Junyi Li and
               Mushui Cao and
               Jing Yang and
               Yi{-}Xue Li and
               Yuan{-}Yuan Li},
  title     = {A novel integrated gene coexpression analysis approach reveals a prognostic
               three-transcription-factor signature for glioma molecular subtypes},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-3}},
  pages     = {71},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0315-y},
  doi       = {10.1186/s12918-016-0315-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WuLCYLL16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/XuW16,
  author    = {Rong Xu and
               QuanQiu Wang},
  title     = {Towards understanding brain-gut-microbiome connections in Alzheimer's
               disease},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-3}},
  pages     = {63},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0307-y},
  doi       = {10.1186/s12918-016-0307-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/XuW16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YangWYPWWSQLL16,
  author    = {Jing Yang and
               Su{-}Juan Wu and
               Shao{-}You Yang and
               Jia{-}Wei Peng and
               Shi{-}Nuo Wang and
               Fu{-}Yan Wang and
               Yu{-}Xing Song and
               Ting Qi and
               Yi{-}Xue Li and
               Yuan{-}Yuan Li},
  title     = {DNetDB: The human disease network database based on dysfunctional
               regulation mechanism},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {36},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0280-5},
  doi       = {10.1186/s12918-016-0280-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YangWYPWWSQLL16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YuCPJKL16,
  author    = {Hasun Yu and
               Sungji Choo and
               Junseok Park and
               Jinmyung Jung and
               Yeeok Kang and
               Doheon Lee},
  title     = {Prediction of drugs having opposite effects on disease genes in a
               directed network},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-1}},
  pages     = {2},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-015-0243-2},
  doi       = {10.1186/s12918-015-0243-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YuCPJKL16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YuLFW16,
  author    = {Guo{-}Xian Yu and
               Wei Luo and
               Guangyuan Fu and
               Jun Wang},
  title     = {Interspecies gene function prediction using semantic similarity},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {4},
  pages     = {495--507},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0361-5},
  doi       = {10.1186/s12918-016-0361-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YuLFW16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YuWMG16,
  author    = {Liang Yu and
               Bingbo Wang and
               Xiaoke Ma and
               Lin Gao},
  title     = {The extraction of drug-disease correlations based on module distance
               in incomplete human interactome},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {4},
  pages     = {531--539},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0364-2},
  doi       = {10.1186/s12918-016-0364-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YuWMG16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YuanLTD16,
  author    = {Huili Yuan and
               Zhenye Li and
               Nelson L. S. Tang and
               Minghua Deng},
  title     = {A network based covariance test for detecting multivariate eQTL in
               saccharomyces cerevisiae},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-1}},
  pages     = {8},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-015-0245-0},
  doi       = {10.1186/s12918-015-0245-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YuanLTD16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YueLGZDZ16,
  author    = {Xun Yue and
               Xing Guo Li and
               Xin{-}Qi Gao and
               Xiang Yu Zhao and
               Yu Xiu Dong and
               Chao Zhou},
  title     = {The \emph{Arabidopsis} phytohormone crosstalk network involves a consecutive
               metabolic route and circular control units of transcription factors
               that regulate enzyme-encoding genes},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {87},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0333-9},
  doi       = {10.1186/s12918-016-0333-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YueLGZDZ16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhangCS16,
  author    = {Wangshu Zhang and
               Marcelo P. Coba and
               Fengzhu Sun},
  title     = {Inference of domain-disease associations from domain-protein, protein-disease
               and disease-disease relationships},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-1}},
  pages     = {4},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-015-0247-y},
  doi       = {10.1186/s12918-015-0247-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhangCS16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhangCZLPZ16,
  author    = {Fan Zhang and
               Haoting Chen and
               Li Na Zhao and
               Hui Liu and
               Teresa M. Przytycka and
               Jie Zheng},
  title     = {Generalized logical model based on network topology to capture the
               dynamical trends of cellular signaling pathways},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-1}},
  pages     = {7},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-015-0249-9},
  doi       = {10.1186/s12918-015-0249-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhangCZLPZ16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhangLLLWJZZX16,
  author    = {Hao Zhang and
               Yanpu Li and
               Yuanning Liu and
               Haiming Liu and
               Hongyu Wang and
               Wen Jin and
               Yanmei Zhang and
               Chao Zhang and
               Dong Xu},
  title     = {Role of plant MicroRNA in cross-species regulatory networks of humans},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {60},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0292-1},
  doi       = {10.1186/s12918-016-0292-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhangLLLWJZZX16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhangLZ16,
  author    = {Fan Zhang and
               Runsheng Liu and
               Jie Zheng},
  title     = {Sig2GRN: a software tool linking signaling pathway with gene regulatory
               network for dynamic simulation},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {4},
  pages     = {541--548},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0365-1},
  doi       = {10.1186/s12918-016-0365-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhangLZ16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhangN16,
  author    = {Shuqin Zhang and
               Michael K. Ng},
  title     = {Gene-microRNA network module analysis for ovarian cancer},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {4},
  pages     = {445--455},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0357-1},
  doi       = {10.1186/s12918-016-0357-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhangN16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhangW0WSLX16,
  author    = {Yaoyun Zhang and
               Heng{-}Yi Wu and
               Jun Xu and
               Jingqi Wang and
               Ergin Soysal and
               Lang Li and
               Hua Xu},
  title     = {Leveraging syntactic and semantic graph kernels to extract pharmacokinetic
               drug drug interactions from biomedical literature},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-3}},
  pages     = {67},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0311-2},
  doi       = {10.1186/s12918-016-0311-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhangW0WSLX16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhaoLHHR16,
  author    = {Zhongming Zhao and
               Yunlong Liu and
               Yufei Huang and
               Kun Huang and
               Jianhua Ruan},
  title     = {Advancing Systems Biology in the International Conference on Intelligent
               Biology and Medicine {(ICIBM)} 2015},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-3}},
  pages     = {61},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0305-0},
  doi       = {10.1186/s12918-016-0305-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhaoLHHR16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhengHZVLFMCNS16,
  author    = {Yun Zheng and
               Vandana Hivrale and
               Xiaotuo Zhang and
               Babu Valliyodan and
               Christine Lelandais{-}Bri{\`{e}}re and
               Andrew D. Farmer and
               Gregory D. May and
               Martin Crespi and
               Henry T. Nguyen and
               Ramanjulu Sunkar},
  title     = {Small {RNA} profiles in soybean primary root tips under water deficit},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {{S-5}},
  pages     = {1--10},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0374-0},
  doi       = {10.1186/s12918-016-0374-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhengHZVLFMCNS16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhouN16,
  author    = {Xiaoyuan Zhou and
               Christine Nardini},
  title     = {A method for automated pathogenic content estimation with application
               to rheumatoid arthritis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  pages     = {107:1--107:8},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0344-6},
  doi       = {10.1186/s12918-016-0344-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhouN16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZouWJTZ16,
  author    = {Quan Zou and
               Shixiang Wan and
               Ying Ju and
               Jijun Tang and
               Xiangxiang Zeng},
  title     = {Pretata: predicting {TATA} binding proteins with novel features and
               dimensionality reduction strategy},
  journal   = {{BMC} Syst. Biol.},
  volume    = {10},
  number    = {4},
  pages     = {401--412},
  year      = {2016},
  url       = {https://doi.org/10.1186/s12918-016-0353-5},
  doi       = {10.1186/s12918-016-0353-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZouWJTZ16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AbedpourK15,
  author    = {Nima Abedpour and
               Markus Kollmann},
  title     = {Resource constrained flux balance analysis predicts selective pressure
               on the global structure of metabolic networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {88},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0232-5},
  doi       = {10.1186/s12918-015-0232-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AbedpourK15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AbshagenKHMEWHZ15,
  author    = {Kerstin Abshagen and
               Matthias K{\"{o}}nig and
               Andreas Hoppe and
               Isabell M{\"{u}}ller and
               Matthias Ebert and
               Honglei Weng and
               Hermann{-}Georg Holzh{\"{u}}tter and
               Ulrich M. Zanger and
               Johannes G. Bode and
               Brigitte Vollmar and
               Maria Thomas and
               Steven Dooley},
  title     = {Pathobiochemical signatures of cholestatic liver disease in bile duct
               ligated mice},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {83},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0229-0},
  doi       = {10.1186/s12918-015-0229-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AbshagenKHMEWHZ15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AlaimoBCFGP15,
  author    = {Salvatore Alaimo and
               Vincenzo Bonnici and
               Damiano Cancemi and
               Alfredo Ferro and
               Rosalba Giugno and
               Alfredo Pulvirenti},
  title     = {DT-Web: a web-based application for drug-target interaction and drug
               combination prediction through domain-tuned network-based inference},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  number    = {{S-3}},
  pages     = {S4},
  year      = {2015},
  url       = {https://doi.org/10.1186/1752-0509-9-S3-S4},
  doi       = {10.1186/1752-0509-9-S3-S4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AlaimoBCFGP15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AndoKH15,
  author    = {Tatsuya Ando and
               Ryuji Kato and
               Hiroyuki Honda},
  title     = {Differential variability and correlation of gene expression identifies
               key genes involved in neuronal differentiation},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {82},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0231-6},
  doi       = {10.1186/s12918-015-0231-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AndoKH15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AzadLK15,
  author    = {A. K. M. Azad and
               Alfons Lawen and
               Jonathan M. Keith},
  title     = {Prediction of signaling cross-talks contributing to acquired drug
               resistance in breast cancer cells by Bayesian statistical modeling},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {2},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-014-0135-x},
  doi       = {10.1186/s12918-014-0135-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AzadLK15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BenderG15,
  author    = {R. Joseph Bender and
               Feilim Mac Gabhann},
  title     = {Dysregulation of the vascular endothelial growth factor and semaphorin
               ligand-receptor families in prostate cancer metastasis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {55},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0201-z},
  doi       = {10.1186/s12918-015-0201-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BenderG15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BhargavaHA15,
  author    = {Anuprabha Bhargava and
               Hanspeter Herzel and
               Bharath Ananthasubramaniam},
  title     = {Mining for novel candidate clock genes in the circadian regulatory
               network},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {78},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0227-2},
  doi       = {10.1186/s12918-015-0227-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BhargavaHA15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BianconiBLPCV15,
  author    = {Fortunato Bianconi and
               Elisa Baldelli and
               Vienna Ludovini and
               Emanuel F. Petricoin and
               Lucio Crin{\`{o}} and
               Paolo Valigi},
  title     = {Conditional robustness analysis for fragility discovery and target
               identification in biochemical networks and in cancer systems biology},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {70},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0216-5},
  doi       = {10.1186/s12918-015-0216-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BianconiBLPCV15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BlanchardL15,
  author    = {Andrew E. Blanchard and
               Ting Lu},
  title     = {Bacterial social interactions drive the emergence of differential
               spatial colony structures},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {59},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0188-5},
  doi       = {10.1186/s12918-015-0188-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BlanchardL15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BoasJMB15,
  author    = {Sonja E. M. Boas and
               Mar{\'{\i}}a I. Navarro Jimenez and
               Roeland M. H. Merks and
               Joke G. Blom},
  title     = {A global sensitivity analysis approach for morphogenesis models},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {85},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0222-7},
  doi       = {10.1186/s12918-015-0222-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BoasJMB15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BoasM15,
  author    = {Sonja E. M. Boas and
               Roeland M. H. Merks},
  title     = {Tip cell overtaking occurs as a side effect of sprouting in computational
               models of angiogenesis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {86},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0230-7},
  doi       = {10.1186/s12918-015-0230-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BoasM15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BotmanJRMJK15,
  author    = {Daniel Botman and
               Fredrik Jansson and
               Eric R{\"{o}}ttinger and
               Mark Q. Martindale and
               Johann de Jong and
               Jaap A. Kaandorp},
  title     = {Analysis of a spatial gene expression database for sea anemone Nematostella
               vectensis during early development},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {63},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0209-4},
  doi       = {10.1186/s12918-015-0209-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BotmanJRMJK15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BrandonHLL15,
  author    = {Madison Brandon and
               Brad Howard and
               Christopher Lawrence and
               Reinhard C. Laubenbacher},
  title     = {Iron acquisition and oxidative stress response in aspergillus fumigatus},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {19},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0163-1},
  doi       = {10.1186/s12918-015-0163-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BrandonHLL15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CaiLHGKW15,
  author    = {Hong Cai and
               Timothy G. Lilburn and
               Changjin Hong and
               Jianying Gu and
               Rui Kuang and
               Yufeng Wang},
  title     = {Predicting and exploring network components involved in pathogenesis
               in the malaria parasite via novel subnetwork alignments},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  number    = {{S-4}},
  pages     = {S1},
  year      = {2015},
  url       = {https://doi.org/10.1186/1752-0509-9-S4-S1},
  doi       = {10.1186/1752-0509-9-S4-S1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CaiLHGKW15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CavaBC15,
  author    = {Claudia Cava and
               Gloria Bertoli and
               Isabella Castiglioni},
  title     = {Integrating genetics and epigenetics in breast cancer: biological
               insights, experimental, computational methods and therapeutic potential},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {62},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0211-x},
  doi       = {10.1186/s12918-015-0211-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CavaBC15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Chamard-Jovenin15,
  author    = {Cl{\'{e}}mence Chamard{-}Jovenin and
               Alain Jung and
               Amand Chesnel and
               Joseph Abecassis and
               St{\'{e}}phane Flament and
               Sonia Ledrappier and
               Christine Macabre and
               Taha Boukhobza and
               H{\'{e}}l{\`{e}}ne Dumond},
  title     = {From ER{\(\alpha\)}66 to ER{\(\alpha\)}36: a generic method for validating
               a prognosis marker of breast tumor progression},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {28},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0178-7},
  doi       = {10.1186/s12918-015-0178-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Chamard-Jovenin15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChenLLL15,
  author    = {Ye Chen and
               Cheng Lv and
               Fangting Li and
               Tiejun Li},
  title     = {Distinguishing the rates of gene activation from phenotypic variations},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {29},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0172-0},
  doi       = {10.1186/s12918-015-0172-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChenLLL15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChenLYYL15,
  author    = {Di Chen and
               Xi Liu and
               Yiping Yang and
               Hongjun Yang and
               Peng Lu},
  title     = {Systematic synergy modeling: understanding drug synergy from a systems
               biology perspective},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {56},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0202-y},
  doi       = {10.1186/s12918-015-0202-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChenLYYL15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChiarugiFHOT15,
  author    = {Davide Chiarugi and
               Moreno Falaschi and
               Diana Hermith and
               Carlos Olarte and
               Luca Torella},
  title     = {Modelling non-Markovian dynamics in biochemical reactions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  number    = {{S-3}},
  pages     = {S8},
  year      = {2015},
  url       = {https://doi.org/10.1186/1752-0509-9-S3-S8},
  doi       = {10.1186/1752-0509-9-S3-S8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChiarugiFHOT15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChristensenHR15,
  author    = {Carl D. Christensen and
               Jan{-}Hendrik S. Hofmeyr and
               Johann M. Rohwer},
  title     = {Tracing regulatory routes in metabolism using generalised supply-demand
               analysis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {89},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0236-1},
  doi       = {10.1186/s12918-015-0236-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChristensenHR15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ColeKHL15,
  author    = {John A. Cole and
               Lars Kohler and
               Jamila Hedhli and
               Zaida Luthey{-}Schulten},
  title     = {Spatially-resolved metabolic cooperativity within dense bacterial
               colonies},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {15},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0155-1},
  doi       = {10.1186/s12918-015-0155-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ColeKHL15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CookOV15,
  author    = {Daniel Cook and
               Babatunde A. Ogunnaike and
               Rajanikanth Vadigepalli},
  title     = {Systems analysis of non-parenchymal cell modulation of liver repair
               across multiple regeneration modes},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {71},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0220-9},
  doi       = {10.1186/s12918-015-0220-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CookOV15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CurrieRGTLBCKYE15,
  author    = {Devin H. Currie and
               Babu Raman and
               Christopher M. Gowen and
               Timothy J. Tschaplinski and
               Miriam L. Land and
               Steven D. Brown and
               Sean F. Covalla and
               Dawn M. Klingeman and
               Zamin K. Yang and
               Nancy L. Engle and
               Courtney M. Johnson and
               Miguel Rodriguez and
               A. Shaw and
               William R. Kenealy and
               Lee R. Lynd and
               Stephen S. Fong and
               Jonathan R. Mielenz and
               Brian H. Davison and
               David A. Hogsett and
               Christopher D. Herring},
  title     = {Genome-scale resources for Thermoanaerobacterium saccharolyticum},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {30},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0159-x},
  doi       = {10.1186/s12918-015-0159-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CurrieRGTLBCKYE15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CursonsGHPDJC15,
  author    = {Joseph Cursons and
               Jerry Gao and
               Daniel G. Hurley and
               Cristin G. Print and
               P. Dunbar and
               Marc Jacobs and
               Edmund J. Crampin},
  title     = {Regulation of {ERK-MAPK} signaling in human epidermis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {41},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0187-6},
  doi       = {10.1186/s12918-015-0187-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CursonsGHPDJC15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CzerwinskaCBZ15,
  author    = {Urszula Czerwinska and
               Laurence Calzone and
               Emmanuel Barillot and
               Andrei Yu. Zinovyev},
  title     = {DeDaL: Cytoscape 3 app for producing and morphing data-driven and
               structure-driven network layouts},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {46},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0189-4},
  doi       = {10.1186/s12918-015-0189-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CzerwinskaCBZ15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/DanzigerRRSPAB15,
  author    = {Samuel A. Danziger and
               David J. Reiss and
               Alexander V. Ratushny and
               Jennifer J. Smith and
               Christopher L. Plaisier and
               John D. Aitchison and
               Nitin S. Baliga},
  title     = {Bicluster Sampled Coherence Metric {(BSCM)} provides an accurate environmental
               context for phenotype predictions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  number    = {{S-2}},
  pages     = {S1},
  year      = {2015},
  url       = {https://doi.org/10.1186/1752-0509-9-S2-S1},
  doi       = {10.1186/1752-0509-9-S2-S1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/DanzigerRRSPAB15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Davila-Velderrain15,
  author    = {Jose Davila{-}Velderrain and
               Carlos Villarreal and
               Elena R. {\'{A}}lvarez{-}Buylla},
  title     = {Reshaping the epigenetic landscape during early flower development:
               induction of attractor transitions by relative differences in gene
               decay rates},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {20},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0166-y},
  doi       = {10.1186/s12918-015-0166-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Davila-Velderrain15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/DengGW15,
  author    = {Yue Deng and
               Lin Gao and
               Bingbo Wang},
  title     = {Erratum to: ppiPre: predicting protein-protein interactions by combining
               heterogeneous features},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {50},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0196-5},
  doi       = {10.1186/s12918-015-0196-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/DengGW15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/DexterXGM15,
  author    = {Joseph P. Dexter and
               Ping Xu and
               Jeremy Gunawardena and
               Megan N. McClean},
  title     = {Robust network structure of the Sln1-Ypd1-Ssk1 three-component phospho-relay
               prevents unintended activation of the {HOG} {MAPK} pathway in Saccharomyces
               cerevisiae},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {17},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0158-y},
  doi       = {10.1186/s12918-015-0158-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/DexterXGM15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/DragerZKREPZ15,
  author    = {Andreas Dr{\"{a}}ger and
               Daniel C. Zielinski and
               Roland Keller and
               Matthias Rall and
               Johannes Eichner and
               Bernhard O. Palsson and
               Andreas Zell},
  title     = {SBMLsqueezer 2: context-sensitive creation of kinetic equations in
               biochemical networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {68},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0212-9},
  doi       = {10.1186/s12918-015-0212-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/DragerZKREPZ15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ErdrichSK15,
  author    = {Philipp Erdrich and
               Ralf Steuer and
               Steffen Klamt},
  title     = {An algorithm for the reduction of genome-scale metabolic network models
               to meaningful core models},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {48},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0191-x},
  doi       = {10.1186/s12918-015-0191-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ErdrichSK15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FaustinoWGMTP15,
  author    = {Randolph Faustino and
               Saranya Wyles and
               Jody Groenendyk and
               Marek Michalak and
               Andre Terzic and
               Carmen Perez{-}Terzic},
  title     = {Systems biology surveillance decrypts pathological transcriptome remodeling},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {36},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0177-8},
  doi       = {10.1186/s12918-015-0177-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FaustinoWGMTP15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FearASDTNM15,
  author    = {Justin M. Fear and
               Michelle N. Arbeitman and
               Matthew Salomon and
               Justin Dalton and
               John Tower and
               Sergey V. Nuzhdin and
               Lauren M. McIntyre},
  title     = {The wright stuff: reimagining path analysis reveals novel components
               of the sex determination hierarchy in drosophila melanogaster},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {53},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0200-0},
  doi       = {10.1186/s12918-015-0200-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FearASDTNM15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FeliuW15,
  author    = {Elisenda Feliu and
               Carsten Wiuf},
  title     = {Finding the positive feedback loops underlying multi-stationarity},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {22},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0164-0},
  doi       = {10.1186/s12918-015-0164-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FeliuW15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FieldDCSAMGO15,
  author    = {Sarah L. Field and
               Tathagata Dasgupta and
               Michele Cummings and
               Richard S. Savage and
               Julius Adebayo and
               Hema McSara and
               Jeremy Gunawardena and
               Nicolas M. Orsi},
  title     = {Bayesian modeling suggests that {IL-12} (p40), {IL-13} and {MCP-1}
               drive murine cytokine networks \emph{in vivo}},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {76},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0226-3},
  doi       = {10.1186/s12918-015-0226-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FieldDCSAMGO15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FornariBHBACCB15,
  author    = {Chiara Fornari and
               Gianfranco Balbo and
               Sami M. Halawani and
               Omar M. Ba{-}Rukab and
               Ab Rahman Ahmad and
               Raffaele A. Calogero and
               Francesca Cordero and
               Marco Beccuti},
  title     = {A versatile mathematical work-flow to explore how Cancer Stem Cell
               fate influences tumor progression},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  number    = {{S-3}},
  pages     = {S1},
  year      = {2015},
  url       = {https://doi.org/10.1186/1752-0509-9-S3-S1},
  doi       = {10.1186/1752-0509-9-S3-S1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FornariBHBACCB15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GaborB15,
  author    = {Attila G{\'{a}}bor and
               Julio R. Banga},
  title     = {Robust and efficient parameter estimation in dynamic models of biological
               systems},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {74},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0219-2},
  doi       = {10.1186/s12918-015-0219-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GaborB15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GaleotaGCBC15,
  author    = {Eugenia Galeota and
               Caius Gavrila and
               Filippo Castiglione and
               Massimo Bernaschi and
               Gianni Cesareni},
  title     = {The hierarchical organization of natural protein interaction networks
               confers self-organization properties on pseudocells},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  number    = {{S-3}},
  pages     = {S3},
  year      = {2015},
  url       = {https://doi.org/10.1186/1752-0509-9-S3-S3},
  doi       = {10.1186/1752-0509-9-S3-S3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GaleotaGCBC15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GarayDG15,
  author    = {Christopher Garay and
               Jonathan M. Dreyfuss and
               James E. Galagan},
  title     = {Metabolic modeling predicts metabolite changes in Mycobacterium tuberculosis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {57},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0206-7},
  doi       = {10.1186/s12918-015-0206-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GarayDG15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Garcia-Albornoz15,
  author    = {Manuel Garcia{-}Albornoz and
               Jens Nielsen},
  title     = {Finding directionality and gene-disease predictions in disease associations},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {35},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0184-9},
  doi       = {10.1186/s12918-015-0184-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Garcia-Albornoz15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GhanbariLV15,
  author    = {Mahsa Ghanbari and
               Julia Lasserre and
               Martin Vingron},
  title     = {Reconstruction of gene networks using prior knowledge},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {84},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0233-4},
  doi       = {10.1186/s12918-015-0233-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GhanbariLV15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GlotovTVPDSIAMZ15,
  author    = {Andrey S. Glotov and
               Evgeny S. Tiys and
               Elena S. Vashukova and
               Vladimir S. Pakin and
               Pavel S. Demenkov and
               Olga V. Saik and
               Timofey V. Ivanisenko and
               Olga N. Arzhanova and
               Elena V. Mozgovaya and
               Marina S. Zainulina and
               Nikolay A. Kolchanov and
               Vladislav S. Baranov and
               Vladimir A. Ivanisenko},
  title     = {Molecular association of pathogenetic contributors to pre-eclampsia
               (pre-eclampsia associome)},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  number    = {{S-2}},
  pages     = {S4},
  year      = {2015},
  url       = {https://doi.org/10.1186/1752-0509-9-S2-S4},
  doi       = {10.1186/1752-0509-9-S2-S4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GlotovTVPDSIAMZ15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HasdemirHS15,
  author    = {Dicle Hasdemir and
               Huub C. J. Hoefsloot and
               Age K. Smilde},
  title     = {Validation and selection of {ODE} based systems biology models: how
               to arrive at more reliable decisions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {32},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0180-0},
  doi       = {10.1186/s12918-015-0180-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HasdemirHS15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HasegawaMYSMIA15,
  author    = {Takanori Hasegawa and
               Tomoya Mori and
               Rui Yamaguchi and
               Teppei Shimamura and
               Satoru Miyano and
               Seiya Imoto and
               Tatsuya Akutsu},
  title     = {Genomic data assimilation using a higher moment filtering technique
               for restoration of gene regulatory networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {14},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0154-2},
  doi       = {10.1186/s12918-015-0154-2},
  timestamp = {Mon, 15 Jun 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HasegawaMYSMIA15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HattoriYW15,
  author    = {Yuya Hattori and
               Akinari Yokoya and
               Ritsuko Watanabe},
  title     = {Cellular automaton-based model for radiation-induced bystander effects},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {90},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0235-2},
  doi       = {10.1186/s12918-015-0235-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HattoriYW15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HsiehTCTKHN15,
  author    = {Wen{-}Tsong Hsieh and
               Ke{-}Rung Tzeng and
               Jin{-}Shuei Ciou and
               Jeffrey J. P. Tsai and
               Nilubon Kurubanjerdjit and
               Chien{-}Hung Huang and
               Ka{-}Lok Ng},
  title     = {Transcription factor and microRNA-regulated network motifs for cancer
               and signal transduction networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  number    = {{S-1}},
  pages     = {S5},
  year      = {2015},
  url       = {https://doi.org/10.1186/1752-0509-9-S1-S5},
  doi       = {10.1186/1752-0509-9-S1-S5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HsiehTCTKHN15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HuangSZZXS15,
  author    = {Liang{-}Chin Huang and
               Ergin Soysal and
               W. Jim Zheng and
               Zhongming Zhao and
               Hua Xu and
               Jingchun Sun},
  title     = {A weighted and integrated drug-target interactome: drug repurposing
               for schizophrenia as a use case},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  number    = {{S-4}},
  pages     = {S2},
  year      = {2015},
  url       = {https://doi.org/10.1186/1752-0509-9-S4-S2},
  doi       = {10.1186/1752-0509-9-S4-S2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HuangSZZXS15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HuangYLZ15,
  author    = {Lifang Huang and
               Zhanjiang Yuan and
               Peijiang Liu and
               Tianshou Zhou},
  title     = {Effects of promoter leakage on dynamics of gene expression},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {16},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0157-z},
  doi       = {10.1186/s12918-015-0157-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HuangYLZ15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/IntosalmiARMCLS15,
  author    = {Jukka Intosalmi and
               Helena Ahlfors and
               Sini Rautio and
               Henrik Mannerstr{\"{o}}m and
               Zhi Jane Chen and
               Riitta Lahesmaa and
               Brigitta Stockinger and
               Harri L{\"{a}}hdesm{\"{a}}ki},
  title     = {Analyzing Th17 cell differentiation dynamics using a novel integrative
               modeling framework for time-course {RNA} sequencing data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {81},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0223-6},
  doi       = {10.1186/s12918-015-0223-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/IntosalmiARMCLS15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/IvanisenkoSITID15,
  author    = {Vladimir A. Ivanisenko and
               Olga V. Saik and
               Nikita V. Ivanisenko and
               Evgeny S. Tiys and
               Timofey V. Ivanisenko and
               Pavel S. Demenkov and
               Nikolay A. Kolchanov},
  title     = {ANDSystem: an Associative Network Discovery System for automated literature
               mining in the field of biology},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  number    = {{S-2}},
  pages     = {S2},
  year      = {2015},
  url       = {https://doi.org/10.1186/1752-0509-9-S2-S2},
  doi       = {10.1186/1752-0509-9-S2-S2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/IvanisenkoSITID15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JeongKWS15,
  author    = {Hyun{-}hwan Jeong and
               So Kim and
               Kyubum Wee and
               Kyung{-}Ah Sohn},
  title     = {Investigating the utility of clinical outcome-guided mutual information
               network in network-based Cox regression},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  number    = {{S-1}},
  pages     = {S8},
  year      = {2015},
  url       = {https://doi.org/10.1186/1752-0509-9-S1-S8},
  doi       = {10.1186/1752-0509-9-S1-S8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JeongKWS15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JeongY15,
  author    = {Hyundoo Jeong and
               Byung{-}Jun Yoon},
  title     = {Accurate multiple network alignment through context-sensitive random
               walk},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  number    = {{S-1}},
  pages     = {S7},
  year      = {2015},
  url       = {https://doi.org/10.1186/1752-0509-9-S1-S7},
  doi       = {10.1186/1752-0509-9-S1-S7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JeongY15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JohnstonSCMS15,
  author    = {Stuart Johnston and
               Esha Shah and
               Lisa Chopin and
               D. L. Sean McElwain and
               Matthew J. Simpson},
  title     = {Estimating cell diffusivity and cell proliferation rate by interpreting
               IncuCyte ZOOM{\texttrademark} assay data using the Fisher-Kolmogorov
               model},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {38},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0182-y},
  doi       = {10.1186/s12918-015-0182-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JohnstonSCMS15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KarlssonJDCKC15,
  author    = {Markus Karlsson and
               David Janz{\'{e}}n and
               Lucia Durrieu and
               Alejandro Colman{-}Lerner and
               Maria Kjellsson and
               Gunnar Cedersund},
  title     = {Nonlinear mixed-effects modelling for single cell estimation: when,
               why, and how to use it},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {52},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0203-x},
  doi       = {10.1186/s12918-015-0203-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KarlssonJDCKC15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KavscekBMN15,
  author    = {Martin Kavscek and
               Govindprasad Bhutada and
               Tobias Madl and
               Klaus Natter},
  title     = {Optimization of lipid production with a genome-scale model of \emph{Yarrowia
               lipolytica}},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {72},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0217-4},
  doi       = {10.1186/s12918-015-0217-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KavscekBMN15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KimJB15,
  author    = {Jae Kyoung Kim and
               Kresimir Josic and
               Matthew R. Bennett},
  title     = {The relationship between stochastic and deterministic quasi-steady
               state approximations},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {87},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0218-3},
  doi       = {10.1186/s12918-015-0218-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KimJB15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KittasBSGT15,
  author    = {Aristotelis Kittas and
               Am{\'{e}}lie Barozet and
               Jekaterina Sereshti and
               Niels Grabe and
               Sophia Tsoka},
  title     = {CytoASP: a Cytoscape app for qualitative consistency reasoning, prediction
               and repair in biological networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {34},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0179-6},
  doi       = {10.1186/s12918-015-0179-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KittasBSGT15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KolarWMKWZ15,
  author    = {Katja Kolar and
               Hanna M. Wischhusen and
               Konrad M{\"{u}}ller and
               Maria Karlsson and
               Wilfried Weber and
               Matias D. Zurbriggen},
  title     = {A synthetic mammalian network to compute population borders based
               on engineered reciprocal cell-cell communication},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {97},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0252-1},
  doi       = {10.1186/s12918-015-0252-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KolarWMKWZ15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KryvenRS15,
  author    = {Ivan Kryven and
               Susanna R{\"{o}}blitz and
               Christof Sch{\"{u}}tte},
  title     = {Solution of the chemical master equation by radial basis functions
               approximation with interface tracking},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {67},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0210-y},
  doi       = {10.1186/s12918-015-0210-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KryvenRS15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LakshmananKCLL15,
  author    = {Meiyappan Lakshmanan and
               Tae Yong Kim and
               Bevan Kai{-}Sheng Chung and
               Sang Yup Lee and
               Dong{-}Yup Lee},
  title     = {Flux-sum analysis identifies metabolite targets for strain improvement},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {73},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0198-3},
  doi       = {10.1186/s12918-015-0198-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LakshmananKCLL15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiV15,
  author    = {Pu Li and
               Quoc Dong Vu},
  title     = {A simple method for identifying parameter correlations in partially
               observed linear dynamic models},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {92},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0234-3},
  doi       = {10.1186/s12918-015-0234-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiV15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LienNSNB15,
  author    = {Stina K. Lien and
               Sebastian Niedenf{\"{u}}hr and
               H{\aa}vard Sletta and
               Katharina N{\"{o}}h and
               Per Bruheim},
  title     = {Fluxome study of Pseudomonas fluorescens reveals major reorganisation
               of carbon flux through central metabolic pathways in response to inactivation
               of the anti-sigma factor MucA},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {6},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0148-0},
  doi       = {10.1186/s12918-015-0148-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LienNSNB15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ManyamBB15,
  author    = {Ganiraju Manyam and
               Aybike Birerdinc and
               Ancha V. Baranova},
  title     = {{KPP:} {KEGG} Pathway Painter},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  number    = {{S-2}},
  pages     = {S3},
  year      = {2015},
  url       = {https://doi.org/10.1186/1752-0509-9-S2-S3},
  doi       = {10.1186/1752-0509-9-S2-S3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ManyamBB15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MarinGMKSJSCS15,
  author    = {Traci L. Marin and
               Brendan Gongol and
               Marcy Martin and
               Stephanie J. King and
               Lemar Smith and
               David A. Johnson and
               Shankar Subramaniam and
               Shu Chien and
               John Shyy},
  title     = {Identification of AMP-activated protein kinase targets by a consensus
               sequence search of the proteome},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {13},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0156-0},
  doi       = {10.1186/s12918-015-0156-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MarinGMKSJSCS15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MarmiessePC15,
  author    = {Lucas Marmiesse and
               R{\'{e}}mi Peyraud and
               Ludovic Cottret},
  title     = {FlexFlux: combining metabolic flux and regulatory network analyses},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {93},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0238-z},
  doi       = {10.1186/s12918-015-0238-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MarmiessePC15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MillardPM15,
  author    = {Pierre Millard and
               Jean{-}Charles Portais and
               Pedro Mendes},
  title     = {Impact of kinetic isotope effects in isotopic studies of metabolic
               systems},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {64},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0213-8},
  doi       = {10.1186/s12918-015-0213-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MillardPM15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MishraBCZZ15,
  author    = {Shital K. Mishra and
               Sourav S. Bhowmick and
               Huey{-}Eng Chua and
               Fan Zhang and
               Jie Zheng},
  title     = {Computational cell fate modelling for discovery of rewiring in apoptotic
               network for enhanced cancer drug sensitivity},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  number    = {{S-1}},
  pages     = {S4},
  year      = {2015},
  url       = {https://doi.org/10.1186/1752-0509-9-S1-S4},
  doi       = {10.1186/1752-0509-9-S1-S4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MishraBCZZ15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MitchellGKSKHPS15,
  author    = {Christopher J. Mitchell and
               Derese Getnet and
               Min Sik Kim and
               Srinivas Manda Srikanth and
               Praveen Kumar and
               Tai{-}Chung Huang and
               Sneha M. Pinto and
               Nirujogi Raja Sekhar and
               Mio Iwasaki and
               Patrick G. Shaw and
               Xinyan Wu and
               Jun Zhong and
               Raghothama Chaerkady and
               Arivusudar Marimuthu and
               Babylakshmi Muthusamy and
               Nandini A. Sahasrabuddhe and
               Rajesh Raju and
               Caitlyn Bowman and
               Ludmila V. Danilova and
               Jevon Cutler and
               Dhanashree S. Kelkar and
               Charles G. Drake and
               T. S. Keshava Prasad and
               Luigi Marchionni and
               Peter N. Murakami and
               Alan F. Scott and
               Leming Shi and
               Jean Thierry{-}Mieg and
               Danielle Thierry{-}Mieg and
               Rafael A. Irizarry and
               Leslie Cope and
               Yasushi Ishihama and
               Charles Wang and
               Harsha Gowda and
               Akhilesh Pandey},
  title     = {A multi-omic analysis of human na{\"{\i}}ve {CD4+} {T} cells},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {75},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0225-4},
  doi       = {10.1186/s12918-015-0225-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MitchellGKSKHPS15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MoTZL15,
  author    = {Wenjuan Mo and
               Chao Tong and
               Yan Zhang and
               Hong Lu},
  title     = {microRNAs' differential regulations mediate the progress of Human
               Papillomavirus (HPV)-induced Cervical Intraepithelial Neoplasia {(CIN)}},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {4},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0145-3},
  doi       = {10.1186/s12918-015-0145-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MoTZL15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MohammadiSSG15,
  author    = {Shahin Mohammadi and
               Baharak Saberidokht and
               Shankar Subramaniam and
               Ananth Grama},
  title     = {Scope and limitations of yeast as a model organism for studying human
               tissue-specific pathways},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {96},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0253-0},
  doi       = {10.1186/s12918-015-0253-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MohammadiSSG15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MoriFKAK15,
  author    = {Tomoya Mori and
               Max Fl{\"{o}}ttmann and
               Marcus Krantz and
               Tatsuya Akutsu and
               Edda Klipp},
  title     = {Stochastic simulation of Boolean rxncon models: towards quantitative
               analysis of large signaling networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {45},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0193-8},
  doi       = {10.1186/s12918-015-0193-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MoriFKAK15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/NienaltowskiWLK15,
  author    = {Karol Nienaltowski and
               Michal Wlodarczyk and
               Tomasz Lipniacki and
               Michal Komorowski},
  title     = {Clustering reveals limits of parameter identifiability in multi-parameter
               models of biochemical dynamics},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {65},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0205-8},
  doi       = {10.1186/s12918-015-0205-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/NienaltowskiWLK15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/OtaMOT15,
  author    = {Takahide Ota and
               Masayo Maeda and
               Mayumi Okamoto and
               Masaaki Tatsuka},
  title     = {Positive regulation of Rho GTPase activity by RhoGDIs as a result
               of their direct interaction with GAPs},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {3},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0143-5},
  doi       = {10.1186/s12918-015-0143-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/OtaMOT15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PadiQ15,
  author    = {Megha Padi and
               John Quackenbush},
  title     = {Integrating transcriptional and protein interaction networks to prioritize
               condition-specific master regulators},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {80},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0228-1},
  doi       = {10.1186/s12918-015-0228-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PadiQ15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PalmisanoHWJTS15,
  author    = {Alida Palmisano and
               Stefan Hoops and
               Layne T. Watson and
               Thomas C. Jones Jr and
               John J. Tyson and
               Clifford A. Shaffer},
  title     = {JigCell Run Manager {(JC-RM):} a tool for managing large sets of biochemical
               model parametrizations},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {95},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0237-0},
  doi       = {10.1186/s12918-015-0237-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PalmisanoHWJTS15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ParadisiAC15,
  author    = {Paolo Paradisi and
               Paolo Allegrini and
               Davide Chiarugi},
  title     = {A renewal model for the emergence of anomalous solute crowding in
               liposomes},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  number    = {{S-3}},
  pages     = {S7},
  year      = {2015},
  url       = {https://doi.org/10.1186/1752-0509-9-S3-S7},
  doi       = {10.1186/1752-0509-9-S3-S7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ParadisiAC15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PenagaricanoVSB15,
  author    = {Francisco Pe{\~{n}}agaricano and
               Bruno Valente and
               Juan P. Steibel and
               Ronald O. Bates and
               Catherine W. Ernst and
               Hasan Khatib and
               Guilherme J. M. Rosa},
  title     = {Exploring causal networks underlying fat deposition and muscularity
               in pigs through the integration of phenotypic, genotypic and transcriptomic
               data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {58},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0207-6},
  doi       = {10.1186/s12918-015-0207-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PenagaricanoVSB15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Perez-LanderoSM15,
  author    = {Sergio P{\'{e}}rez{-}Landero and
               Santiago Sandoval{-}Motta and
               Claudia Mart{\'{\i}}nez{-}Anaya and
               Runying Yang and
               Jorge Folch{-}Mallol and
               Luz Mart{\'{\i}}nez and
               Larissa Ventura and
               Karina Guill{\'{e}}n{-}Navarro and
               Maximino Aldana{-}Gonz{\'{a}}lez and
               Jorge Nieto{-}Sotelo},
  title     = {Complex regulation of Hsf1-Skn7 activities by the catalytic subunits
               of {PKA} in Saccharomyces cerevisiae: experimental and computational
               evidences},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {42},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0185-8},
  doi       = {10.1186/s12918-015-0185-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Perez-LanderoSM15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PienaarDLK15,
  author    = {Elsje Pienaar and
               V{\'{e}}ronique Dartois and
               Jennifer J. Linderman and
               Denise E. Kirschner},
  title     = {\emph{In silico} evaluation and exploration of antibiotic tuberculosis
               treatment regimens},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {79},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0221-8},
  doi       = {10.1186/s12918-015-0221-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PienaarDLK15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PolitiPZM15,
  author    = {Nicol{\`{o}} Politi and
               Lorenzo Pasotti and
               Susanna Zucca and
               Paolo Magni},
  title     = {Modelling the effects of cell-to-cell variability on the output of
               interconnected gene networks in bacterial populations},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  number    = {{S-3}},
  pages     = {S6},
  year      = {2015},
  url       = {https://doi.org/10.1186/1752-0509-9-S3-S6},
  doi       = {10.1186/1752-0509-9-S3-S6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PolitiPZM15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PulvirentiGDPMG15,
  author    = {Alfredo Pulvirenti and
               Rosalba Giugno and
               Rosario Distefano and
               Giuseppe Pigola and
               Misael Mongiov{\`{\i}} and
               Girolamo Giudice and
               Vera Vendramin and
               Alessandro Lombardo and
               Federica Cattonaro and
               Alfredo Ferro},
  title     = {A knowledge base for Vitis vinifera functional analysis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  number    = {{S-3}},
  pages     = {S5},
  year      = {2015},
  url       = {https://doi.org/10.1186/1752-0509-9-S3-S5},
  doi       = {10.1186/1752-0509-9-S3-S5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PulvirentiGDPMG15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ReedGHN15,
  author    = {Michael Reed and
               Mary Gamble and
               Megan Hall and
               H. Nijhout},
  title     = {Mathematical analysis of the regulation of competing methyltransferases},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {69},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0215-6},
  doi       = {10.1186/s12918-015-0215-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ReedGHN15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Reyes-GibbyYWYS15,
  author    = {Cielito Reyes{-}Gibby and
               Christine Yuan and
               Jian Wang and
               Sai{-}Ching Yeung and
               Sanjay Shete},
  title     = {Gene network analysis shows immune-signaling and {ERK1/2} as novel
               genetic markers for multiple addiction phenotypes: alcohol, smoking
               and opioid addiction},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {25},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0167-x},
  doi       = {10.1186/s12918-015-0167-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Reyes-GibbyYWYS15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RickettPHZKBM15,
  author    = {Lydia M. Rickett and
               Nick Pullen and
               Matthew Hartley and
               Cyril Zipfel and
               Sophien Kamoun and
               J{\'{o}}zsef Baranyi and
               Richard J. Morris},
  title     = {Incorporating prior knowledge improves detection of differences in
               bacterial growth rate},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {60},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0204-9},
  doi       = {10.1186/s12918-015-0204-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RickettPHZKBM15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SabetianS15,
  author    = {Soudabeh Sabetian and
               Mohd Shahir Shamsir},
  title     = {Identification of putative drug targets for human sperm-egg interaction
               defect using protein network approach},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {37},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0186-7},
  doi       = {10.1186/s12918-015-0186-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SabetianS15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Sands15,
  author    = {Tim Sands},
  title     = {Annual acknowledgement of reviewers},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {7},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0150-6},
  doi       = {10.1186/s12918-015-0150-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Sands15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SchultzQ15,
  author    = {Andr{\'{e}} Schultz and
               Amina A. Qutub},
  title     = {Predicting internal cell fluxes at sub-optimal growth},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {18},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0153-3},
  doi       = {10.1186/s12918-015-0153-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SchultzQ15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ShahzadMC15,
  author    = {Khuram Shahzad and
               Jay E. Mittenthal and
               Gustavo Caetano{-}Anoll{\'{e}}s},
  title     = {The organization of domains in proteins obeys Menzerath-Altmann's
               law of language},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {44},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0192-9},
  doi       = {10.1186/s12918-015-0192-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ShahzadMC15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Sharifi-ZarchiT15,
  author    = {Ali Sharifi{-}Zarchi and
               Mehdi Totonchi and
               Keynoush Khaloughi and
               Razieh Karamzadeh and
               Marcos J. Ara{\'{u}}zo{-}Bravo and
               Hossein Baharvand and
               Ruzbeh Tusserkani and
               Hamid Pezeshk and
               Hamidreza Chitsaz and
               Mehdi Sadeghi},
  title     = {Increased robustness of early embryogenesis through collective decision-making
               by key transcription factors},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {23},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0169-8},
  doi       = {10.1186/s12918-015-0169-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Sharifi-ZarchiT15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ShimodaSOIA15,
  author    = {Takehiro Shimoda and
               Shuji Suzuki and
               Masahito Ohue and
               Takashi Ishida and
               Yutaka Akiyama},
  title     = {Protein-protein docking on hardware accelerators: comparison of {GPU}
               and {MIC} architectures},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  number    = {{S-1}},
  pages     = {S6},
  year      = {2015},
  url       = {https://doi.org/10.1186/1752-0509-9-S1-S6},
  doi       = {10.1186/1752-0509-9-S1-S6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ShimodaSOIA15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SimoesDWE15,
  author    = {Ricardo de Matos Simoes and
               Sabine Dalleau and
               Kate E. Williamson and
               Frank Emmert{-}Streib},
  title     = {Urothelial cancer gene regulatory networks inferred from large-scale
               RNAseq, Bead and Oligo gene expression data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {21},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0165-z},
  doi       = {10.1186/s12918-015-0165-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SimoesDWE15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SinCV15,
  author    = {Celine Sin and
               Davide Chiarugi and
               Angelo Valleriani},
  title     = {Single-molecule modeling of mRNA degradation by miRNA: Lessons from
               data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  number    = {{S-3}},
  pages     = {S2},
  year      = {2015},
  url       = {https://doi.org/10.1186/1752-0509-9-S3-S2},
  doi       = {10.1186/1752-0509-9-S3-S2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SinCV15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SokolenkoA15,
  author    = {Stanislav Sokolenko and
               Marc Aucoin},
  title     = {A correction method for systematic error in \({}^{\mbox{1}}\) {H-NMR}
               time-course data validated through stochastic cell culture simulation},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {51},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0197-4},
  doi       = {10.1186/s12918-015-0197-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SokolenkoA15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SongPLA15,
  author    = {Ruijie Song and
               Weilin Peng and
               Ping Liu and
               Murat Acar},
  title     = {A cell size- and cell cycle-aware stochastic model for predicting
               time-dynamic gene network activity in individual cells},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {91},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0240-5},
  doi       = {10.1186/s12918-015-0240-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SongPLA15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SridharanUHL15,
  author    = {Gautham Vivek Sridharan and
               Ehsan Ullah and
               Soha Hassoun and
               Kyongbum Lee},
  title     = {Discovery of substrate cycles in large scale metabolic networks using
               hierarchical modularity},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {5},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0146-2},
  doi       = {10.1186/s12918-015-0146-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SridharanUHL15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/StrasserFTM15,
  author    = {Michael K. Strasser and
               Justin Feigelman and
               Fabian J. Theis and
               Carsten Marr},
  title     = {Inference of spatiotemporal effects on cellular state transitions
               from time-lapse microscopy},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {61},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0208-5},
  doi       = {10.1186/s12918-015-0208-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/StrasserFTM15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TajparastF15,
  author    = {Mohammad Tajparast and
               Dominic Frigon},
  title     = {Genome-scale metabolic model of Rhodococcus jostii {RHA1} (iMT1174)
               to study the accumulation of storage compounds during nitrogen-limited
               condition},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {43},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0190-y},
  doi       = {10.1186/s12918-015-0190-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TajparastF15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TanevskiTKD15,
  author    = {Jovan Tanevski and
               Ljupco Todorovski and
               Yannis Kalaidzidis and
               Saso Dzeroski},
  title     = {Domain-specific model selection for structural identification of the
               Rab5-Rab7 dynamics in endocytosis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {31},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0175-x},
  doi       = {10.1186/s12918-015-0175-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TanevskiTKD15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TendlerMA15,
  author    = {Avichai Tendler and
               Avraham E. Mayo and
               Uri Alon},
  title     = {Evolutionary tradeoffs, Pareto optimality and the morphology of ammonite
               shells},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {12},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0149-z},
  doi       = {10.1186/s12918-015-0149-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TendlerMA15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TripathiFCBBTKL15,
  author    = {Sushil Tripathi and
               {\AA}smund Flobak and
               Konika Chawla and
               Ana{\"{\i}}s Baudot and
               Torunn Bruland and
               Liv Thommesen and
               Martin Kuiper and
               Astrid L{\ae}greid},
  title     = {The gastrin and cholecystokinin receptors mediated signaling network:
               a scaffold for data analysis and new hypotheses on regulatory mechanisms},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {40},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0181-z},
  doi       = {10.1186/s12918-015-0181-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TripathiFCBBTKL15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TsaiLLW15,
  author    = {Kun{-}Nan Tsai and
               Shu{-}Hsi Lin and
               Wei{-}Chung Liu and
               Daryi Wang},
  title     = {Inferring microbial interaction network from microbiome data using
               {RMN} algorithm},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {54},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0199-2},
  doi       = {10.1186/s12918-015-0199-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TsaiLLW15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/UdathaTSOAP15,
  author    = {D. B. R. K. Gupta Udatha and
               Evangelos Topakas and
               Margarita Salazar and
               Lisbeth Olsson and
               Mikael R. Andersen and
               Gianni Panagiotou},
  title     = {Deciphering the signaling mechanisms of the plant cell wall degradation
               machinery in \emph{Aspergillus oryzae}},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {77},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0224-5},
  doi       = {10.1186/s12918-015-0224-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/UdathaTSOAP15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/VillaverdeHSB0C15,
  author    = {Alejandro Fern{\'{a}}ndez Villaverde and
               David Henriques and
               Kieran Smallbone and
               Sophia Bongard and
               Joachim Schmid and
               Damjan Cicin{-}Sain and
               Anton Crombach and
               Julio Saez{-}Rodriguez and
               Klaus Mauch and
               Eva Balsa{-}Canto and
               Pedro Mendes and
               Johannes Jaeger and
               Julio R. Banga},
  title     = {BioPreDyn-bench: a suite of benchmark problems for dynamic modelling
               in systems biology},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {8},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0144-4},
  doi       = {10.1186/s12918-015-0144-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/VillaverdeHSB0C15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WangCM15,
  author    = {Zichen Wang and
               Neil R. Clark and
               Avi Ma'ayan},
  title     = {Dynamics of the discovery process of protein-protein interactions
               from low content studies},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {26},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0173-z},
  doi       = {10.1186/s12918-015-0173-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WangCM15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WangKW15,
  author    = {Qing Wang and
               David J. Klinke II and
               Zhijun Wang},
  title     = {{CD8} \({}^{\mbox{+}}\) {T} cell response to adenovirusvaccination
               and subsequent suppression of tumor growth: modeling, simulation and
               analysis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {27},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0168-9},
  doi       = {10.1186/s12918-015-0168-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WangKW15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WangLLDH15,
  author    = {Caihua Wang and
               Juan Liu and
               Fei Luo and
               Zixing Deng and
               Qian{-}Nan Hu},
  title     = {Predicting target-ligand interactions using protein ligand-binding
               site and ligand substructures},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  number    = {{S-1}},
  pages     = {S2},
  year      = {2015},
  url       = {https://doi.org/10.1186/1752-0509-9-S1-S2},
  doi       = {10.1186/1752-0509-9-S1-S2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WangLLDH15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WangLLLZJYLGZWW15,
  author    = {Li{-}Ying Wang and
               Jun Liu and
               Yuan Li and
               Bing Li and
               Yingying Zhang and
               Zhi{-}Wei Jing and
               Ya{-}Nan Yu and
               Hai{-}Xia Li and
               Shan{-}Shan Guo and
               Yi{-}Jun Zhao and
               Zhong Wang and
               Yongyan Wang},
  title     = {Time-dependent variation of pathways and networks in a 24-hour window
               after cerebral ischemia-reperfusion injury},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {11},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0152-4},
  doi       = {10.1186/s12918-015-0152-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WangLLLZJYLGZWW15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WangYPLJMY15,
  author    = {Likun Wang and
               Luhe Yang and
               Zuohan Peng and
               Dan Lu and
               Yan Jin and
               Michael McNutt and
               Yuxin Yin},
  title     = {cisPath: an R/Bioconductor package for cloud users for visualization
               and management of functional protein interaction networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  number    = {{S-1}},
  pages     = {S1},
  year      = {2015},
  url       = {https://doi.org/10.1186/1752-0509-9-S1-S1},
  doi       = {10.1186/1752-0509-9-S1-S1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WangYPLJMY15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WeberHOHR15,
  author    = {Patrick Weber and
               Mariana Hornjik and
               Monilola A. Olayioye and
               Angelika Hausser and
               Nicole Radde},
  title     = {A computational model of {PKD} and {CERT} interactions at the trans-Golgi
               network of mammalian cells},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {9},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0147-1},
  doi       = {10.1186/s12918-015-0147-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WeberHOHR15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WieczorekMFGZI15,
  author    = {Jakob Wieczorek and
               Rahuman S. Malik{-}Sheriff and
               Yessica Fermin and
               Hern{\'{a}}n E. Grecco and
               Eli Zamir and
               Katja Ickstadt},
  title     = {Uncovering distinct protein-network topologies in heterogeneous cell
               populations},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {24},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0170-2},
  doi       = {10.1186/s12918-015-0170-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WieczorekMFGZI15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WolstencroftOKN15,
  author    = {Katherine Wolstencroft and
               Stuart Owen and
               Olga Krebs and
               Quyen Nguyen and
               Natalie J. Stanford and
               Martin Golebiewski and
               Andreas Weidemann and
               Meik Bittkowski and
               Lihua An and
               David Shockley and
               Jacky L. Snoep and
               Wolfgang M{\"{u}}ller and
               Carole A. Goble},
  title     = {{SEEK:} a systems biology data and model management platform},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {33},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0174-y},
  doi       = {10.1186/s12918-015-0174-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WolstencroftOKN15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WronowskaCNG15,
  author    = {Weronika Wronowska and
               Agata Charzynska and
               Karol Nienaltowski and
               Anna Gambin},
  title     = {Computational modeling of sphingolipid metabolism},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {47},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0176-9},
  doi       = {10.1186/s12918-015-0176-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WronowskaCNG15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WuWLYLS15,
  author    = {Qingyao Wu and
               Zhenyu Wang and
               Chunshan Li and
               Yunming Ye and
               Yueping Li and
               Ning Sun},
  title     = {Protein functional properties prediction in sparsely-label {PPI} networks
               through regularized non-negative matrix factorization},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  number    = {{S-1}},
  pages     = {S9},
  year      = {2015},
  url       = {https://doi.org/10.1186/1752-0509-9-S1-S9},
  doi       = {10.1186/1752-0509-9-S1-S9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WuWLYLS15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YeXCCCL15,
  author    = {Chao Ye and
               Nan Xu and
               Haiqin Chen and
               Yong Q. Chen and
               Wei Chen and
               Liming Liu},
  title     = {Reconstruction and analysis of a genome-scale metabolic model of the
               oleaginous fungus Mortierella alpina},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {1},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-014-0137-8},
  doi       = {10.1186/s12918-014-0137-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YeXCCCL15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YinGMGS15,
  author    = {Weiwei Yin and
               Swetha Garimalla and
               Alberto Moreno and
               Mary Galinski and
               Mark P. Styczynski},
  title     = {A tree-like Bayesian structure learning algorithm for small-sample
               datasets from complex biological model systems},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {49},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0194-7},
  doi       = {10.1186/s12918-015-0194-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YinGMGS15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YousefSSSHK15,
  author    = {Kaveh Yousef and
               Adam Streck and
               Christof Sch{\"{u}}tte and
               Heike Siebert and
               Regine Hengge and
               Max von Kleist},
  title     = {Logical-continuous modelling of post-translationally regulated bistability
               of curli fiber expression in Escherichia coli},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {39},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0183-x},
  doi       = {10.1186/s12918-015-0183-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YousefSSSHK15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YousofshahiMWLH15,
  author    = {Mona Yousofshahi and
               Sara Manteiga and
               Charmian Wu and
               Kyongbum Lee and
               Soha Hassoun},
  title     = {{PROXIMAL:} a method for Prediction of Xenobiotic Metabolism},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {94},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0241-4},
  doi       = {10.1186/s12918-015-0241-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YousofshahiMWLH15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YuZDG15,
  author    = {Guo{-}Xian Yu and
               Hailong Zhu and
               Carlotta Domeniconi and
               Maozu Guo},
  title     = {Integrating multiple networks for protein function prediction},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  number    = {{S-1}},
  pages     = {S3},
  year      = {2015},
  url       = {https://doi.org/10.1186/1752-0509-9-S1-S3},
  doi       = {10.1186/1752-0509-9-S1-S3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YuZDG15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhangKD15,
  author    = {Weiruo Zhang and
               Ritesh Kolte and
               David L. Dill},
  title     = {Towards in vivo estimation of reaction kinetics using high-throughput
               metabolomics data: a maximum likelihood approach},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {66},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0214-7},
  doi       = {10.1186/s12918-015-0214-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhangKD15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhukovaS15,
  author    = {Anna Zhukova and
               David James Sherman},
  title     = {Mimoza: web-based semantic zooming and navigation in metabolic networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {9},
  pages     = {10},
  year      = {2015},
  url       = {https://doi.org/10.1186/s12918-015-0151-5},
  doi       = {10.1186/s12918-015-0151-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhukovaS15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AbateZFAWFLIIR14,
  author    = {Francesco Abate and
               Sakellarios Zairis and
               Elisa Ficarra and
               Andrea Acquaviva and
               Chris H. Wiggins and
               Veronique Frattini and
               Anna Lasorella and
               Antonio Iavarone and
               Giorgio Inghirami and
               Raul Rabadan},
  title     = {Pegasus: a comprehensive annotation and prediction tool for detection
               of driver gene fusions in cancer},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {97},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0097-z},
  doi       = {10.1186/s12918-014-0097-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AbateZFAWFLIIR14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Abdou-ArbiLMSB14,
  author    = {Oumarou Abdou{-}Arbi and
               Sophie Lemosquet and
               Jaap Van Milgen and
               Anne Siegel and
               J{\'{e}}r{\'{e}}mie Bourdon},
  title     = {Exploring metabolism flexibility in complex organisms through quantitative
               study of precursor sets for system outputs},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {8},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-8},
  doi       = {10.1186/1752-0509-8-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Abdou-ArbiLMSB14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AbnaofMWMSLSHWZWF14,
  author    = {Khalid Abnaof and
               Nikhil Mallela and
               Gudrun Walenda and
               Steffen Meurer and
               Kristin Ser{\'{e}} and
               Qiong Lin and
               Bert Smeets and
               Kurt Hoffmann and
               Wolfgang Wagner and
               Martin Zenke and
               Ralf Weiskirchen and
               Holger Fr{\"{o}}hlich},
  title     = {TGF-beta stimulation in human and murine cells reveals commonly affected
               biological processes and pathways at transcription level},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {55},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-55},
  doi       = {10.1186/1752-0509-8-55},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AbnaofMWMSLSHWZWF14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AidelbergTRDBA14,
  author    = {Guy Aidelberg and
               Benjamin D. Towbin and
               Daphna Rothschild and
               Erez Dekel and
               Anat Bren and
               Uri Alon},
  title     = {Hierarchy of non-glucose sugars in Escherichia coli},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {133},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0133-z},
  doi       = {10.1186/s12918-014-0133-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AidelbergTRDBA14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AlberichLSST14,
  author    = {Ricardo Alberich and
               Merc{\`{e}} Llabr{\'{e}}s and
               David S{\'{a}}nchez and
               Marta Simeoni and
               Marc Tuduri},
  title     = {MP-Align: alignment of metabolic pathways},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {58},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-58},
  doi       = {10.1186/1752-0509-8-58},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AlberichLSST14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AlcarazPBBJCADB14,
  author    = {Nicolas Alcaraz and
               Josch Pauling and
               Richa Batra and
               Eudes Barbosa and
               Alexander Junge and
               Anne Christensen and
               Vasco Azevedo and
               Henrik J. Ditzel and
               Jan Baumbach},
  title     = {KeyPathwayMiner 4.0: condition-specific pathway analysis by combining
               multiple omics studies and networks with Cytoscape},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {99},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0099-x},
  doi       = {10.1186/s12918-014-0099-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AlcarazPBBJCADB14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AndrieuxBT14,
  author    = {Geoffroy Andrieux and
               Michel Le Borgne and
               Nathalie Th{\'{e}}ret},
  title     = {An integrative modeling framework reveals plasticity of TGF-{\(\beta\)}
               signaling},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {30},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-30},
  doi       = {10.1186/1752-0509-8-30},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AndrieuxBT14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AungTRT14,
  author    = {Hnin H. Aung and
               Athanasios Tsoukalas and
               John C. Rutledge and
               Ilias Tagkopoulos},
  title     = {A systems biology analysis of brain microvascular endothelial cell
               lipotoxicity},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {80},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-80},
  doi       = {10.1186/1752-0509-8-80},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AungTRT14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AwadC14,
  author    = {Sherine Awad and
               Jin Chen},
  title     = {Inferring transcription factor collaborations in gene regulatory networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-1}},
  pages     = {S1},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S1-S1},
  doi       = {10.1186/1752-0509-8-S1-S1},
  timestamp = {Sat, 30 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AwadC14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BarterSMY14,
  author    = {Rebecca L. Barter and
               Sarah{-}Jane Schramm and
               Graham J. Mann and
               Yee Hwa Yang},
  title     = {Network-based biomarkers enhance classical approaches to prognostic
               gene expression signatures},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-4}},
  pages     = {S5},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S4-S5},
  doi       = {10.1186/1752-0509-8-S4-S5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BarterSMY14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BarveHMW14,
  author    = {Aditya Barve and
               Sayed{-}Rzgar Hosseini and
               Olivier C. Martin and
               Andreas Wagner},
  title     = {Historical contingency and the gradual evolution of metabolic properties
               in central carbon and genome-scale metabolisms},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {48},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-48},
  doi       = {10.1186/1752-0509-8-48},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BarveHMW14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BittigMNSU14,
  author    = {Arne T. Bittig and
               Claudia Matschegewski and
               J. Barbara Nebe and
               Susanne St{\"{a}}hlke and
               Adelinde M. Uhrmacher},
  title     = {Membrane related dynamics and the formation of actin in cells growing
               on micro-topographies: a spatial computational model},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {106},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0106-2},
  doi       = {10.1186/s12918-014-0106-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BittigMNSU14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BlanchardCL14,
  author    = {Andrew E. Blanchard and
               Venhar Celik and
               Ting Lu},
  title     = {Extinction, coexistence, and localized patterns of a bacterial population
               with contact-dependent inhibition},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {23},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-23},
  doi       = {10.1186/1752-0509-8-23},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BlanchardCL14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BlavyGLMS14,
  author    = {Pierre Blavy and
               Florence Gondret and
               Sandrine Lagarrigue and
               Jaap Van Milgen and
               Anne Siegel},
  title     = {Using a large-scale knowledge database on reactions and regulations
               to propose key upstream regulators of various sets of molecules participating
               in cell metabolism},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {32},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-32},
  doi       = {10.1186/1752-0509-8-32},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BlavyGLMS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BosqueFPFE14,
  author    = {Gabriel Bosque and
               Abel Folch{-}Fortuny and
               Jes{\'{u}}s Pic{\'{o}} and
               Alberto Ferrer and
               Santiago F. Elena},
  title     = {Topology analysis and visualization of Potyvirus protein-protein interaction
               network},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {129},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0129-8},
  doi       = {10.1186/s12918-014-0129-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BosqueFPFE14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CaberlottoN14,
  author    = {Laura Caberlotto and
               Thanh{-}Phuong Nguyen},
  title     = {A systems biology investigation of neurodegenerative dementia reveals
               a pivotal role of autophagy},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {65},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-65},
  doi       = {10.1186/1752-0509-8-65},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CaberlottoN14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CampbellA14,
  author    = {Colin Campbell and
               R{\'{e}}ka Albert},
  title     = {Stabilization of perturbed Boolean network attractors through compensatory
               interactions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {53},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-53},
  doi       = {10.1186/1752-0509-8-53},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CampbellA14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Cardelli14,
  author    = {Luca Cardelli},
  title     = {Morphisms of reaction networks that couple structure to function},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {84},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-84},
  doi       = {10.1186/1752-0509-8-84},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Cardelli14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CarreiraEMVPTRR14,
  author    = {Rafael Carreira and
               Pedro Evangelista and
               Paulo Maia and
               Paulo Vila{\c{c}}a and
               Marcellinus Pont and
               Jean{-}Fran{\c{c}}ois Tomb and
               Isabel Rocha and
               Miguel Rocha},
  title     = {{CBFA:} phenotype prediction integrating metabolic models with constraints
               derived from experimental data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {123},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0123-1},
  doi       = {10.1186/s12918-014-0123-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CarreiraEMVPTRR14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChenJZJ14,
  author    = {Yong Chen and
               Thibault Jacquemin and
               Shuyan Zhang and
               Rui Jiang},
  title     = {Prioritizing protein complexes implicated in human diseases by network
               optimization},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-1}},
  pages     = {S2},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S1-S2},
  doi       = {10.1186/1752-0509-8-S1-S2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChenJZJ14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChenMZLZ14,
  author    = {Haifen Chen and
               Piyushkumar A. Mundra and
               Li Na Zhao and
               Feng Lin and
               Jie Zheng},
  title     = {Highly sensitive inference of time-delayed gene regulation by network
               deconvolution},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-4}},
  pages     = {S6},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S4-S6},
  doi       = {10.1186/1752-0509-8-S4-S6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChenMZLZ14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChengAZM14,
  author    = {Hsueh{-}Chien Cheng and
               Bastian Robert Angermann and
               Fengkai Zhang and
               Martin Meier{-}Schellersheim},
  title     = {NetworkViewer: visualizing biochemical reaction networks with embedded
               rendering of molecular interaction rules},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {70},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-70},
  doi       = {10.1186/1752-0509-8-70},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChengAZM14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChiangLCH14,
  author    = {Austin W. T. Chiang and
               Wei{-}Chung Liu and
               Pep Charusanti and
               Ming{-}Jing Hwang},
  title     = {Understanding system dynamics of an adaptive enzyme network from globally
               profiled kinetic parameters},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {4},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-4},
  doi       = {10.1186/1752-0509-8-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChiangLCH14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChinCWHKL14,
  author    = {Chia{-}Hao Chin and
               Shu{-}Hwa Chen and
               Hsin{-}Hung Wu and
               Chin{-}Wen Ho and
               Ming{-}Tat Ko and
               Chung{-}Yen Lin},
  title     = {cytoHubba: identifying hub objects and sub-networks from complex interactome},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-4}},
  pages     = {S11},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S4-S11},
  doi       = {10.1186/1752-0509-8-S4-S11},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChinCWHKL14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChristadorePKS14,
  author    = {Lisa M. Christadore and
               Lisa Pham and
               Eric D. Kolaczyk and
               Scott E. Schaus},
  title     = {Improvement of experimental testing and network training conditions
               with genome-wide microarrays for more accurate predictions of drug
               gene targets},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {7},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-7},
  doi       = {10.1186/1752-0509-8-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChristadorePKS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChuHCCRLBRLQS14,
  author    = {Jen{-}hwa Chu and
               Craig P. Hersh and
               Peter J. Castaldi and
               Michael H. Cho and
               Benjamin A. Raby and
               Nan M. Laird and
               Russell Bowler and
               Stephen I. Rennard and
               Joseph Loscalzo and
               John Quackenbush and
               Edwin K. Silverman},
  title     = {Analyzing networks of phenotypes in complex diseases: methodology
               and applications in {COPD}},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {78},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-78},
  doi       = {10.1186/1752-0509-8-78},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChuHCCRLBRLQS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChuangL14,
  author    = {Chia{-}Hua Chuang and
               Chun{-}Liang Lin},
  title     = {Synthesizing genetic sequential logic circuit with clock pulse generator},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {63},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-63},
  doi       = {10.1186/1752-0509-8-63},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChuangL14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CoelhoAMPRCBO14,
  author    = {Edgar D. Coelho and
               Joel Arrais and
               S{\'{e}}rgio Matos and
               Carlos Pereira and
               Nuno Rosa and
               Maria Jos{\'{e}} Correia and
               Marlene Barros and
               Jos{\'{e}} Lu{\'{\i}}s Oliveira},
  title     = {Computational prediction of the human-microbial oral interactome},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {24},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-24},
  doi       = {10.1186/1752-0509-8-24},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CoelhoAMPRCBO14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ConesaM14,
  author    = {Ana Conesa and
               Ali Mortazavi},
  title     = {The common ground of genomics and systems biology},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-2}},
  pages     = {S1},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S2-S1},
  doi       = {10.1186/1752-0509-8-S2-S1},
  timestamp = {Tue, 18 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ConesaM14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CostaVV14,
  author    = {Rafael S. Costa and
               Andr{\'{e}} Ver{\'{\i}}ssimo and
               Susana Vinga},
  title     = {KiMoSys: a web-based repository of experimental data for KInetic MOdels
               of biological SYStems},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {85},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0085-3},
  doi       = {10.1186/s12918-014-0085-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CostaVV14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/DamSSS14,
  author    = {Jesse C. J. van Dam and
               Peter J. Schaap and
               Vitor Martins dos Santos and
               Mar{\'{\i}}a Su{\'{a}}rez{-}Diez},
  title     = {Integration of heterogeneous molecular networks to unravel gene-regulation
               in Mycobacterium tuberculosis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {111},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0111-5},
  doi       = {10.1186/s12918-014-0111-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/DamSSS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/DazardSDBB14,
  author    = {Jean{-}Eudes J. Dazard and
               Yana Sandlers and
               Stephanie K. Doerner and
               Nathan A. Berger and
               Henri Brunengraber},
  title     = {Metabolomics of Apc \({}^{\mbox{ Min/+ }}\) mice genetically susceptible
               to intestinal cancer},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {72},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-72},
  doi       = {10.1186/1752-0509-8-72},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/DazardSDBB14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/DempseyA14,
  author    = {Kathryn Dempsey and
               Hesham H. Ali},
  title     = {Identifying aging-related genes in mouse hippocampus using gateway
               nodes},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {62},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-62},
  doi       = {10.1186/1752-0509-8-62},
  timestamp = {Fri, 11 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/DempseyA14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/DonitzW14,
  author    = {J{\"{u}}rgen D{\"{o}}nitz and
               Edgar Wingender},
  title     = {EndoNet: an information resource about the intercellular signaling
               network},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {49},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-49},
  doi       = {10.1186/1752-0509-8-49},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/DonitzW14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/El-KebirBHK14,
  author    = {Mohammed El{-}Kebir and
               Bernd W. Brandt and
               Jaap Heringa and
               Gunnar W. Klau},
  title     = {A web server for protein-protein interaction network querying},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {40},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-40},
  doi       = {10.1186/1752-0509-8-40},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/El-KebirBHK14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/El-SemmanKSNSN14,
  author    = {Ibrahim E. El{-}Semman and
               Fredrik H. Karlsson and
               Saeed Shoaie and
               Intawat Nookaew and
               Taysir Hassan A. Soliman and
               Jens Nielsen},
  title     = {Genome-scale metabolic reconstructions of Bifidobacterium adolescentis
               {L2-32} and Faecalibacterium prausnitzii {A2-165} and their interaction},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {41},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-41},
  doi       = {10.1186/1752-0509-8-41},
  timestamp = {Tue, 08 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/El-SemmanKSNSN14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Espinosa-SotoIAAF14,
  author    = {Carlos Espinosa{-}Soto and
               Richard G. H. Immink and
               Gerco C. Angenent and
               Elena R. {\'{A}}lvarez{-}Buylla and
               Stefan de Folter},
  title     = {Tetramer formation in Arabidopsis {MADS} domain proteins: analysis
               of a protein-protein interaction network},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {9},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-9},
  doi       = {10.1186/1752-0509-8-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Espinosa-SotoIAAF14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FadhalGM14,
  author    = {Emad Fadhal and
               Junaid Gamieldien and
               Eric C. Mwambene},
  title     = {Protein interaction networks as metric spaces: a novel perspective
               on distribution of hubs},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {6},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-6},
  doi       = {10.1186/1752-0509-8-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FadhalGM14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FadhalMG14,
  author    = {Emad Fadhal and
               Eric C. Mwambene and
               Junaid Gamieldien},
  title     = {Modelling human protein interaction networks as metric spaces has
               potential in disease research and drug target discovery},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {68},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-68},
  doi       = {10.1186/1752-0509-8-68},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FadhalMG14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FarhangmehrMTS14,
  author    = {Farzaneh Farhangmehr and
               Mano Ram Maurya and
               Daniel M. Tartakovsky and
               Shankar Subramaniam},
  title     = {Information theoretic approach to complex biological network reconstruction:
               application to cytokine release in {RAW} 264.7 macrophages},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {77},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-77},
  doi       = {10.1186/1752-0509-8-77},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FarhangmehrMTS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GanegodaWWL14,
  author    = {Gamage Upeksha Ganegoda and
               Jianxin Wang and
               Fang{-}Xiang Wu and
               Min Li},
  title     = {Prediction of disease genes using tissue-specified gene-gene network},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-3}},
  pages     = {S3},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S3-S3},
  doi       = {10.1186/1752-0509-8-S3-S3},
  timestamp = {Fri, 21 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GanegodaWWL14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GarciaDCS14,
  author    = {Benjamin Garcia and
               Gargi Datta and
               Gregory P. Cosgrove and
               Michael Strong},
  title     = {Network and matrix analysis of the respiratory disease interactome},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {34},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-34},
  doi       = {10.1186/1752-0509-8-34},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GarciaDCS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GerinMF14,
  author    = {St{\'{e}}phanie G{\'{e}}rin and
               Gr{\'{e}}gory Mathy and
               Fabrice Franck},
  title     = {Modeling the dependence of respiration and photosynthesis upon light,
               acetate, carbon dioxide, nitrate and ammonium in Chlamydomonas reinhardtii
               using design of experiments and multiple regression},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {96},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0096-0},
  doi       = {10.1186/s12918-014-0096-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GerinMF14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GlassQSCRYD14,
  author    = {Kimberly Glass and
               John Quackenbush and
               Edwin K. Silverman and
               Bartolome Celli and
               Stephen I. Rennard and
               Guo{-}Cheng Yuan and
               Dawn L. DeMeo},
  title     = {Sexually-dimorphic targeting of functionally-related genes in {COPD}},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {118},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0118-y},
  doi       = {10.1186/s12918-014-0118-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GlassQSCRYD14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Gomez-CabreroAMTMGBBCT14,
  author    = {David Gomez{-}Cabrero and
               Imad Abugessaisa and
               Dieter Maier and
               Andrew E. Teschendorff and
               Matthias Merkenschlager and
               Andreas Gisel and
               Esteban Ballestar and
               Erik Bongcam{-}Rudloff and
               Ana Conesa and
               Jesper Tegn{\'{e}}r},
  title     = {Data integration in the era of omics: current and future challenges},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-2}},
  pages     = {I1},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S2-I1},
  doi       = {10.1186/1752-0509-8-S2-I1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Gomez-CabreroAMTMGBBCT14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GongF14,
  author    = {Haijun Gong and
               Lu Feng},
  title     = {Computational analysis of the roles of ER-Golgi network in the cell
               cycle},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-4}},
  pages     = {S3},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S4-S3},
  doi       = {10.1186/1752-0509-8-S4-S3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GongF14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GongWC14,
  author    = {Haijun Gong and
               Tong Tong Wu and
               Edmund M. Clarke},
  title     = {Pathway-gene identification for pancreatic cancer survival via doubly
               regularized Cox regression},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-1}},
  pages     = {S3},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S1-S3},
  doi       = {10.1186/1752-0509-8-S1-S3},
  timestamp = {Sat, 30 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GongWC14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GuzmanMMSCHSTDZRC14,
  author    = {Shirley Guzm{\'{a}}n and
               Silvia Marin and
               Anibal Miranda and
               Vitaly A. Selivanov and
               Josep J. Centelles and
               Romain Harmancey and
               Fatima Smih and
               Annie Turkieh and
               Yves Durocher and
               Antonio Zorzano and
               Philippe Rouet and
               Marta Cascante},
  title     = {\({}^{\mbox{13}}\)C metabolic flux analysis shows that resistin impairs
               the metabolic response to insulin in {L6E9} myotubes},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {109},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0109-z},
  doi       = {10.1186/s12918-014-0109-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GuzmanMMSCHSTDZRC14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HabibiEA14,
  author    = {Iman Habibi and
               Effat S. Emamian and
               Ali Abdi},
  title     = {Quantitative analysis of intracellular communication and signaling
               errors in signaling networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {89},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0089-z},
  doi       = {10.1186/s12918-014-0089-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HabibiEA14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HamonJB14,
  author    = {J{\'{e}}r{\'{e}}my Hamon and
               Paul Jennings and
               Fr{\'{e}}d{\'{e}}ric Y. Bois},
  title     = {Systems biology modeling of omics data: effect of cyclosporine a on
               the Nrf2 pathway in human renal cells},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {76},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-76},
  doi       = {10.1186/1752-0509-8-76},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HamonJB14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HaoZWZLGS14,
  author    = {Tong Hao and
               Zheng Zeng and
               Bin Wang and
               Yichen Zhang and
               Yichen Liu and
               Xuyun Geng and
               Jinsheng Sun},
  title     = {The protein-protein interaction network of eyestalk, Y-organ and hepatopancreas
               in Chinese mitten crab Eriocheir sinensis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {39},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-39},
  doi       = {10.1186/1752-0509-8-39},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HaoZWZLGS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HariharanHTSJP14,
  author    = {Ramkumar Hariharan and
               Jessica M. Hoffman and
               Ariel S. Thomas and
               Quinlyn A. Soltow and
               Dean P. Jones and
               Daniel E. L. Promislow},
  title     = {Invariance and plasticity in the Drosophila melanogaster metabolomic
               network in response to temperature},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {139},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0139-6},
  doi       = {10.1186/s12918-014-0139-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HariharanHTSJP14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HasdemirHWS14,
  author    = {Dicle Hasdemir and
               Huub C. J. Hoefsloot and
               Johan A. Westerhuis and
               Age K. Smilde},
  title     = {How informative is your kinetic model?: using resampling methods for
               model invalidation},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {61},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-61},
  doi       = {10.1186/1752-0509-8-61},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HasdemirHWS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HeWQZ14,
  author    = {Jieyue He and
               Chunyan Wang and
               Kunpu Qiu and
               Wei Zhong},
  title     = {An novel frequent probability pattern mining algorithm based on circuit
               simulation method in uncertain biological networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-3}},
  pages     = {S6},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S3-S6},
  doi       = {10.1186/1752-0509-8-S3-S6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HeWQZ14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HegdePM14,
  author    = {Shubhada R. Hegde and
               Khushbu Pal and
               Shekhar C. Mande},
  title     = {Differential enrichment of regulatory motifs in the composite network
               of protein-protein and gene regulatory interactions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {26},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-26},
  doi       = {10.1186/1752-0509-8-26},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HegdePM14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HellwegerFB14,
  author    = {Ferdi L. Hellweger and
               Neil D. Fredrick and
               John A. Berges},
  title     = {Age-correlated stress resistance improves fitness of yeast: support
               from agent-based simulations},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {18},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-18},
  doi       = {10.1186/1752-0509-8-18},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HellwegerFB14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Hernandez-de-DiegoBGTAC14,
  author    = {Rafael Hern{\'{a}}ndez{-}de{-}Diego and
               Noemi Boix{-}Chova and
               David Gomez{-}Cabrero and
               Jesper Tegn{\'{e}}r and
               Imad Abugessaisa and
               Ana Conesa},
  title     = {STATegra {EMS:} an Experiment Management System for complex next-generation
               omics experiments},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-2}},
  pages     = {S9},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S2-S9},
  doi       = {10.1186/1752-0509-8-S2-S9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Hernandez-de-DiegoBGTAC14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HeydeBHSKB14,
  author    = {Silvia von der Heyde and
               Christian Bender and
               Frauke Henjes and
               Johanna Sonntag and
               Ulrike Korf and
               Tim Bei{\ss}barth},
  title     = {Boolean ErbB network reconstructions and perturbation simulations
               reveal individual drug response in different breast cancer cell lines},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {75},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-75},
  doi       = {10.1186/1752-0509-8-75},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HeydeBHSKB14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Hijas-ListeKBB14,
  author    = {Gundi{\'{a}}n M. de Hijas{-}Liste and
               Edda Klipp and
               Eva Balsa{-}Canto and
               Julio R. Banga},
  title     = {Global dynamic optimization approach to predict activation in metabolic
               pathways},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {1},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-1},
  doi       = {10.1186/1752-0509-8-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Hijas-ListeKBB14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HillMWBM14,
  author    = {Christopher G. Hill and
               Lilya V. Matyunina and
               L. DeEtte Walker and
               Benedict B. Benigno and
               John F. McDonald},
  title     = {Transcriptional override: a regulatory network model of indirect responses
               to modulations in microRNA expression},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {36},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-36},
  doi       = {10.1186/1752-0509-8-36},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HillMWBM14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HsuYLHC14,
  author    = {Chih{-}Yuan Hsu and
               Tsu{-}Chun Yu and
               Ling{-}Jiun Lin and
               Rei{-}Hsing Hu and
               Bor{-}Sen Chen},
  title     = {Systematic approach to Escherichia coli cell population control using
               a genetic lysis circuit},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-5}},
  pages     = {S7},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S5-S7},
  doi       = {10.1186/1752-0509-8-S5-S7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HsuYLHC14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/IhekwabaMB14,
  author    = {Adaoha E. C. Ihekwaba and
               Ivan Mura and
               Gary C. Barker},
  title     = {Computational modelling and analysis of the molecular network regulating
               sporulation initiation in Bacillus subtilis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {119},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0119-x},
  doi       = {10.1186/s12918-014-0119-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/IhekwabaMB14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/InghamOMBCKRJDWSH14,
  author    = {Aaron Ingham and
               Simone A. Osborne and
               Moira Menzies and
               Suzie Briscoe and
               Wei Chen and
               Kritaya Kongsuwan and
               Antonio Reverter and
               Angela Jeanes and
               Brian P. Dalrymple and
               Gene Wijffels and
               Robert Seymour and
               Nicholas J. Hudson},
  title     = {{RNF14} is a regulator of mitochondrial and immune function in muscle},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {10},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-10},
  doi       = {10.1186/1752-0509-8-10},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/InghamOMBCKRJDWSH14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/IranzoV14,
  author    = {Jaime Iranzo and
               Pablo Villoslada},
  title     = {Autoimmunity and tumor immunology: two facets of a probabilistic immune
               system},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {120},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0120-4},
  doi       = {10.1186/s12918-014-0120-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/IranzoV14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JohanssonSC14,
  author    = {Rikard Johansson and
               Peter Str{\aa}lfors and
               Gunnar Cedersund},
  title     = {Combining test statistics and models in bootstrapped model rejection:
               it is a balancing act},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {46},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-46},
  doi       = {10.1186/1752-0509-8-46},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JohanssonSC14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JonnalagaddaS14,
  author    = {Sudhakar Jonnalagadda and
               Rajagopalan Srinivasan},
  title     = {An efficient graph theory based method to identify every minimal reaction
               set in a metabolic network},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {28},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-28},
  doi       = {10.1186/1752-0509-8-28},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JonnalagaddaS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KasaviEAOK14,
  author    = {Ceyda Kasavi and
               Serpil Eraslan and
               Kazim Yal{\c{c}}in Arga and
               Ebru Oner and
               Bet{\"{u}}l Kirdar},
  title     = {A system based network approach to ethanol tolerance in Saccharomyces
               cerevisiae},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {90},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0090-6},
  doi       = {10.1186/s12918-014-0090-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KasaviEAOK14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KelderVOGR14,
  author    = {Thomas Kelder and
               Lars Verschuren and
               Ben van Ommen and
               Alain J. van Gool and
               Marijana Radonjic},
  title     = {Network signatures link hepatic effects of anti-diabetic interventions
               with systemic disease parameters},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {108},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0108-0},
  doi       = {10.1186/s12918-014-0108-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KelderVOGR14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KinoshitaIUT14,
  author    = {Ryoichi Kinoshita and
               Mitsuo Iwadate and
               Hideaki Umeyama and
               Y{-}h. Taguchi},
  title     = {Genes associated with genotype-specific {DNA} methylation in squamous
               cell carcinoma as candidate drug targets},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-1}},
  pages     = {S4},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S1-S4},
  doi       = {10.1186/1752-0509-8-S1-S4},
  timestamp = {Sat, 30 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KinoshitaIUT14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KochiHARWM14,
  author    = {Naomi Kochi and
               Tom{\'{a}}s Helikar and
               Laura Allen and
               Jim A. Rogers and
               Zhenyuan Wang and
               Mihaela Teodora Matache},
  title     = {Sensitivity analysis of biological Boolean networks using information
               fusion based on nonadditive set functions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {92},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0092-4},
  doi       = {10.1186/s12918-014-0092-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KochiHARWM14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KogelmanK14,
  author    = {Lisette J. A. Kogelman and
               Haja N. Kadarmideen},
  title     = {Weighted Interaction {SNP} Hub {(WISH)} network method for building
               genetic networks for complex diseases and traits using whole genome
               genotype data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-2}},
  pages     = {S5},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S2-S5},
  doi       = {10.1186/1752-0509-8-S2-S5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KogelmanK14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LaiCHW14,
  author    = {Fu{-}Jou Lai and
               Hong{-}Tsun Chang and
               Yueh{-}Min Huang and
               Wei{-}Sheng Wu},
  title     = {A comprehensive performance evaluation on the prediction results of
               existing cooperative transcription factors identification algorithms},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-4}},
  pages     = {S9},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S4-S9},
  doi       = {10.1186/1752-0509-8-S4-S9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LaiCHW14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LaiJCHW14,
  author    = {Fu{-}Jou Lai and
               Mei{-}Huei Jhu and
               Chia{-}Chun Chiu and
               Yueh{-}Min Huang and
               Wei{-}Sheng Wu},
  title     = {Identifying cooperative transcription factors in yeast using multiple
               data sources},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-5}},
  pages     = {S2},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S5-S2},
  doi       = {10.1186/1752-0509-8-S5-S2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LaiJCHW14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LakatosTPVC14,
  author    = {Dora Lakatos and
               Emily D. Travis and
               Kelsey E. Pierson and
               Jay L. Vivian and
               Andr{\'{a}}s Czir{\'{o}}k},
  title     = {Autocrine {FGF} feedback can establish distinct states of Nanog expression
               in pluripotent stem cells: a computational analysis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {112},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0112-4},
  doi       = {10.1186/s12918-014-0112-4},
  timestamp = {Wed, 09 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LakatosTPVC14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LanzaCRA14,
  author    = {Amanda M. Lanza and
               Kathleen A. Curran and
               Lindsey G. Rey and
               Hal S. Alper},
  title     = {A condition-specific codon optimization approach for improved heterologous
               gene expression in Saccharomyces cerevisiae},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {33},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-33},
  doi       = {10.1186/1752-0509-8-33},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LanzaCRA14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LarocqueCN14,
  author    = {Mathieu Larocque and
               Thierry Ch{\'{e}}nard and
               Rafael Najmanovich},
  title     = {A curated C. difficile strain 630 metabolic network: prediction of
               essential targets and inhibitors},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {117},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0117-z},
  doi       = {10.1186/s12918-014-0117-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LarocqueCN14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LaviSG14,
  author    = {Orit Lavi and
               Jeff Skinner and
               Michael M. Gottesman},
  title     = {Network features suggest new hepatocellular carcinoma treatment strategies},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {88},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0088-0},
  doi       = {10.1186/s12918-014-0088-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LaviSG14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LeeHH14,
  author    = {Wei{-}Po Lee and
               Yu{-}Ting Hsiao and
               Wei{-}Che Hwang},
  title     = {Designing a parallel evolutionary algorithm for inferring gene networks
               on the cloud computing environment},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {5},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-5},
  doi       = {10.1186/1752-0509-8-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LeeHH14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LeeLKT14,
  author    = {Mikyung Lee and
               Zhichao Liu and
               Reagan Kelly and
               Weida Tong},
  title     = {Of text and gene - using text mining methods to uncover hidden knowledge
               in toxicogenomics},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {93},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0093-3},
  doi       = {10.1186/s12918-014-0093-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LeeLKT14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiFRHDZCLLYW14,
  author    = {Peng Li and
               Yingxue Fu and
               Jinlong Ru and
               Chao Huang and
               Jiangfeng Du and
               Chunli Zheng and
               Xuetong Chen and
               Pidong Li and
               Aiping Lu and
               Ling Yang and
               Yonghua Wang},
  title     = {Insights from systems pharmacology into cardiovascular drug discovery
               and therapy},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {141},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0141-z},
  doi       = {10.1186/s12918-014-0141-z},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiFRHDZCLLYW14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LinLWLCCLHC14,
  author    = {Che Lin and
               Chin{-}Nan Lin and
               Yu{-}Chao Wang and
               Fang{-}Yu Liu and
               Yu{-}Wen Chien and
               Yung{-}Jen Chuang and
               Chung{-}Yu Lan and
               Wen{-}Ping Hsieh and
               Bor{-}Sen Chen},
  title     = {Robustness analysis on interspecies interaction network for iron and
               glucose competition between Candida albicans and zebrafish during
               infection},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-5}},
  pages     = {S6},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S5-S6},
  doi       = {10.1186/1752-0509-8-S5-S6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LinLWLCCLHC14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LinLWLCLHC14,
  author    = {Che Lin and
               Chin{-}Nan Lin and
               Yu{-}Chao Wang and
               Fang{-}Yu Liu and
               Yung{-}Jen Chuang and
               Chung{-}Yu Lan and
               Wen{-}Ping Hsieh and
               Bor{-}Sen Chen},
  title     = {The role of TGF-{\(\beta\)} signaling and apoptosis in innate and
               adaptive immunity in zebrafish: a systems biology approach},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {116},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0116-0},
  doi       = {10.1186/s12918-014-0116-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LinLWLCLHC14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LindforsJOROP14,
  author    = {Erno Lindfors and
               Paula Jouhten and
               Merja Oja and
               Eija Rintala and
               Matej Oresic and
               Merja Penttil{\"{a}}},
  title     = {Integration of transcription and flux data reveals molecular paths
               associated with differences in oxygen-dependent phenotypes of Saccharomyces
               cerevisiae},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {16},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-16},
  doi       = {10.1186/1752-0509-8-16},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LindforsJOROP14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuDPDMCW14,
  author    = {Sheng Liu and
               Shamitha Dissanayake and
               Sanjay Patel and
               Xin Dang and
               Todd Mlsna and
               Yixin Chen and
               Dawn Wilkins},
  title     = {Learning accurate and interpretable models based on regularized random
               forests regression},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-3}},
  pages     = {S5},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S3-S5},
  doi       = {10.1186/1752-0509-8-S3-S5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuDPDMCW14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuFOHN14,
  author    = {Lifang Liu and
               Amir Feizi and
               Tobias {\"{O}}sterlund and
               Carsten Hjort and
               Jens Nielsen},
  title     = {Genome-scale analysis of the high-efficient protein secretion system
               of Aspergillus oryzae},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {73},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-73},
  doi       = {10.1186/1752-0509-8-73},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuFOHN14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuG14,
  author    = {Yang Liu and
               Rudiyanto Gunawan},
  title     = {Parameter estimation of dynamic biological network models using integrated
               fluxes},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {127},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0127-x},
  doi       = {10.1186/s12918-014-0127-x},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuG14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuOLZPF14,
  author    = {Joanne K. Liu and
               Edward J. O'Brien and
               Joshua A. Lerman and
               Karsten Zengler and
               Bernhard O. Palsson and
               Adam M. Feist},
  title     = {Reconstruction and modeling protein translocation and compartmentalization
               in Escherichia coli at the genome-scale},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {110},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0110-6},
  doi       = {10.1186/s12918-014-0110-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuOLZPF14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuP14,
  author    = {Xueming Liu and
               Linqiang Pan},
  title     = {Detection of driver metabolites in the human liver metabolic network
               using structural controllability analysis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {51},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-51},
  doi       = {10.1186/1752-0509-8-51},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuP14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuWLWZSWQZ14,
  author    = {Hui Liu and
               Tongtong Wang and
               Hongbo Liu and
               Yanjun Wei and
               Guofeng Zhao and
               Jianzhong Su and
               Qiong Wu and
               Hong Qiao and
               Yan Zhang},
  title     = {Detection of type 2 diabetes related modules and genes based on epigenetic
               networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-1}},
  pages     = {S5},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S1-S5},
  doi       = {10.1186/1752-0509-8-S1-S5},
  timestamp = {Sat, 30 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuWLWZSWQZ14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuWZ14,
  author    = {Li{-}Zhi Liu and
               Fang{-}Xiang Wu and
               Wen{-}Jun Zhang},
  title     = {A group LASSO-based method for robustly inferring gene regulatory
               networks from multiple time-course datasets},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-3}},
  pages     = {S1},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S3-S1},
  doi       = {10.1186/1752-0509-8-S3-S1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuWZ14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LuoAZ14,
  author    = {Zijun Luo and
               Robert Azencott and
               Yi Zhao},
  title     = {Modeling miRNA-mRNA interactions: fitting chemical kinetics equations
               to microarray data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {19},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-19},
  doi       = {10.1186/1752-0509-8-19},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LuoAZ14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LuoGZFZLF14,
  author    = {Xiaochuang Luo and
               Jingyi Gu and
               Rongxuan Zhu and
               Maoxiao Feng and
               Xuejiao Zhu and
               Yumin Li and
               Jia Fei},
  title     = {Integrative analysis of differential miRNA and functional study of
               miR-21 by seed-targeting inhibition in multiple myeloma cells in response
               to berberine},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {82},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-82},
  doi       = {10.1186/1752-0509-8-82},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LuoGZFZLF14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MaedaK14,
  author    = {Kazuhiro Maeda and
               Hiroyuki Kurata},
  title     = {Analytical study of robustness of a negative feedback oscillator by
               multiparameter sensitivity},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-5}},
  pages     = {S1},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S5-S1},
  doi       = {10.1186/1752-0509-8-S5-S1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MaedaK14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MencheSCMRCMLTGLBRASB14,
  author    = {J{\"{o}}rg Menche and
               Amitabh Sharma and
               Michael H. Cho and
               Ruth J. Mayer and
               Stephen I. Rennard and
               Bartolome Celli and
               Bruce E. Miller and
               Nick Locantore and
               Ruth Tal{-}Singer and
               Soumitra Ghosh and
               Chris Larminie and
               Glyn Bradley and
               John H. Riley and
               Alvar Agusti and
               Edwin K. Silverman and
               Albert{-}L{\'{a}}szl{\'{o}} Barab{\'{a}}si},
  title     = {A diVIsive Shuffling Approach (VIStA) for gene expression analysis
               to identify subtypes in Chronic Obstructive Pulmonary Disease},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-2}},
  pages     = {S8},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S2-S8},
  doi       = {10.1186/1752-0509-8-S2-S8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MencheSCMRCMLTGLBRASB14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MeyerCCKLTLBKRSTBSSS14,
  author    = {Pablo Meyer and
               Thomas Cokelaer and
               Deepak Chandran and
               Kyung Hyuk Kim and
               Po{-}Ru Loh and
               George Tucker and
               Mark Lipson and
               Bonnie Berger and
               Clemens Kreutz and
               Andreas Raue and
               Bernhard Steiert and
               Jens Timmer and
               Erhan Bilal and
               Herbert M. Sauro and
               Gustavo Stolovitzky and
               Julio Saez{-}Rodriguez},
  title     = {Network topology and parameter estimation: from experimental design
               methods to gene regulatory network kinetics using a community based
               approach},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {13},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-13},
  doi       = {10.1186/1752-0509-8-13},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MeyerCCKLTLBKRSTBSSS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MeyerCS14,
  author    = {Pablo Meyer and
               Guillermo A. Cecchi and
               Gustavo Stolovitzky},
  title     = {Spatial localization of the first and last enzymes effectively connects
               active metabolic pathways in bacteria},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {131},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0131-1},
  doi       = {10.1186/s12918-014-0131-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MeyerCS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MoralesTPVL14,
  author    = {Yeimy Morales and
               Marta Tortajada and
               Jes{\'{u}}s Pic{\'{o}} and
               Josep Veh{\'{\i}} and
               Francisco Llaneras},
  title     = {Validation of an {FBA} model for Pichia pastoris in chemostat cultures},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {142},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0142-y},
  doi       = {10.1186/s12918-014-0142-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MoralesTPVL14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MoriyaYK14,
  author    = {Takefumi Moriya and
               Masayuki Yamamura and
               Daisuke Kiga},
  title     = {Effects of downstream genes on synthetic genetic circuits},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-4}},
  pages     = {S4},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S4-S4},
  doi       = {10.1186/1752-0509-8-S4-S4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MoriyaYK14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MullenDBT14,
  author    = {Emma Kate Mullen and
               Mark Daley and
               Alanna Gabrielle Backx and
               Graham James Thompson},
  title     = {Gene co-citation networks associated with worker sterility in honey
               bees},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {38},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-38},
  doi       = {10.1186/1752-0509-8-38},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MullenDBT14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/NarangKHL14,
  author    = {Pankaj Narang and
               Shawez Khan and
               Anmol Hemrom and
               Andrew M. Lynn},
  title     = {MetaNET - a web-accessible interactive platform for biological metabolic
               network analysis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {130},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0130-2},
  doi       = {10.1186/s12918-014-0130-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/NarangKHL14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/NelsonSBMSR14,
  author    = {Martin R. Nelson and
               Kelly J. Sutton and
               Bindi S. Brook and
               Dann G. Mallet and
               Daniel P. Simpson and
               Roger G. Rank},
  title     = {STI-GMaS: an open-source environment for simulation of sexually-transmitted
               infections},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {66},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-66},
  doi       = {10.1186/1752-0509-8-66},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/NelsonSBMSR14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/NicolaeWBZH14,
  author    = {Averina Nicolae and
               Judith Wahrheit and
               Janina Bahnemann and
               An{-}Ping Zeng and
               Elmar Heinzle},
  title     = {Non-stationary \({}^{\mbox{13}}\)C metabolic flux analysis of Chinese
               hamster ovary cells in batch culture using extracellular labeling
               highlights metabolic reversibility and compartmentation},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {50},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-50},
  doi       = {10.1186/1752-0509-8-50},
  timestamp = {Thu, 07 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/NicolaeWBZH14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/OngVLLSRR14,
  author    = {Wai Ong and
               Trang T. Vu and
               Klaus N. Lovendahl and
               Jenna M. Llull and
               Margrethe H. Serres and
               Margaret F. Romine and
               Jennifer L. Reed},
  title     = {Comparisons of Shewanella strains based on genome annotations, modeling,
               and experiments},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {31},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-31},
  doi       = {10.1186/1752-0509-8-31},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/OngVLLSRR14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Otero-MurasB14,
  author    = {Irene Otero{-}Muras and
               Julio R. Banga},
  title     = {Multicriteria global optimization for biocircuit design},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {113},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0113-3},
  doi       = {10.1186/s12918-014-0113-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Otero-MurasB14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Otero-MurasYS14,
  author    = {Irene Otero{-}Muras and
               Pencho Yordanov and
               J{\"{o}}rg Stelling},
  title     = {A method for inverse bifurcation of biochemical switches: inferring
               parameters from dose response curves},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {114},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0114-2},
  doi       = {10.1186/s12918-014-0114-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Otero-MurasYS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/OuzounoglouKEXSVM14,
  author    = {Eleftherios Ouzounoglou and
               Dimitrios Kalamatianos and
               Evangelia Emmanouilidou and
               Maria Xilouri and
               Leonidas Stefanis and
               Kostas Vekrellis and
               Elias S. Manolakos},
  title     = {In silico modeling of the effects of alpha-synuclein oligomerization
               on dopaminergic neuronal homeostasis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {54},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-54},
  doi       = {10.1186/1752-0509-8-54},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/OuzounoglouKEXSVM14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PaciCF14,
  author    = {Paola Paci and
               Teresa Colombo and
               Lorenzo Farina},
  title     = {Computational analysis identifies a sponge interaction network between
               long non-coding RNAs and messenger RNAs in human breast cancer},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {83},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-83},
  doi       = {10.1186/1752-0509-8-83},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PaciCF14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PalmisanoHWJTS14,
  author    = {Alida Palmisano and
               Stefan Hoops and
               Layne T. Watson and
               Thomas C. Jones Jr and
               John J. Tyson and
               Clifford A. Shaffer},
  title     = {Multistate Model Builder {(MSMB):} a flexible editor for compact biochemical
               models},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {42},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-42},
  doi       = {10.1186/1752-0509-8-42},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PalmisanoHWJTS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PapanikolaouTLPS14,
  author    = {Nikolaos A. Papanikolaou and
               Andrej Tillinger and
               Xiaoping Liu and
               Athanasios G. Papavassiliou and
               Esther L. Sabban},
  title     = {A systems approach identifies co-signaling molecules of early growth
               response 1 transcription factor in immobilization stress},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {100},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0100-8},
  doi       = {10.1186/s12918-014-0100-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PapanikolaouTLPS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ParvuG14,
  author    = {Ovidiu Parvu and
               David R. Gilbert},
  title     = {Automatic validation of computational models using pseudo-3D spatio-temporal
               model checking},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {124},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0124-0},
  doi       = {10.1186/s12918-014-0124-0},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ParvuG14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PatilN14,
  author    = {Ashwini Patil and
               Kenta Nakai},
  title     = {TimeXNet: Identifying active gene sub-networks using time-course gene
               expression profiles},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-4}},
  pages     = {S2},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S4-S2},
  doi       = {10.1186/1752-0509-8-S4-S2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PatilN14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PauwelsLV18,
  author    = {Edouard Pauwels and
               Christian Lajaunie and
               Jean{-}Philippe Vert},
  title     = {A Bayesian active learning strategy for sequential experimental design
               in systems biology},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {1},
  pages     = {102:1--102:11},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0102-6},
  doi       = {10.1186/s12918-014-0102-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PauwelsLV18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PayneW14,
  author    = {Joshua L. Payne and
               Andreas Wagner},
  title     = {Latent phenotypes pervade gene regulatory circuits},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {64},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-64},
  doi       = {10.1186/1752-0509-8-64},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PayneW14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PengLJWC14,
  author    = {Jiajie Peng and
               Hongxiang Li and
               Qinghua Jiang and
               Yadong Wang and
               Jin Chen},
  title     = {An integrative approach for measuring semantic similarities using
               gene ontology},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-5}},
  pages     = {S8},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S5-S8},
  doi       = {10.1186/1752-0509-8-S5-S8},
  timestamp = {Fri, 18 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PengLJWC14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PengWCCLW14,
  author    = {Wei Peng and
               Jianxin Wang and
               Juan Cai and
               Lu Chen and
               Min Li and
               Fang{-}Xiang Wu},
  title     = {Improving protein function prediction using domain and protein complexes
               in {PPI} networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {35},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-35},
  doi       = {10.1186/1752-0509-8-35},
  timestamp = {Fri, 21 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PengWCCLW14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PenrodM14,
  author    = {Nadia M. Penrod and
               Jason H. Moore},
  title     = {Influence networks based on coexpression improve drug target discovery
               for the development of novel cancer therapeutics},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {12},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-12},
  doi       = {10.1186/1752-0509-8-12},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PenrodM14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PetersenRH14,
  author    = {Brenden K. Petersen and
               Glen E. P. Ropella and
               C. Anthony Hunt},
  title     = {Toward modular biological models: defining analog modules based on
               referent physiological mechanisms},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {95},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0095-1},
  doi       = {10.1186/s12918-014-0095-1},
  timestamp = {Sat, 05 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PetersenRH14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PiroWSROERK14,
  author    = {Rosario M. Piro and
               Stefan Wiesberg and
               Gunnar Schramm and
               Nico Rebel and
               Marcus Oswald and
               Roland Eils and
               Gerhard Reinelt and
               Rainer K{\"{o}}nig},
  title     = {Network topology-based detection of differential gene regulation and
               regulatory switches in cell metabolism and signaling},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {56},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-56},
  doi       = {10.1186/1752-0509-8-56},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PiroWSROERK14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PlaisierLABBKPRFB14,
  author    = {Christopher L. Plaisier and
               Fang{-}Yin Lo and
               Justin Ashworth and
               Aaron N. Brooks and
               Karlyn D. Beer and
               Amardeep Kaur and
               Min Pan and
               David J. Reiss and
               Marc T. Facciotti and
               Nitin S. Baliga},
  title     = {Evolution of context dependent regulation by expansion of feast/famine
               regulatory proteins},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {122},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0122-2},
  doi       = {10.1186/s12918-014-0122-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PlaisierLABBKPRFB14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PonzoniNTGMDDC14,
  author    = {Ignacio Ponzoni and
               Mar{\'{\i}}a Jos{\'{e}} Nueda and
               Sonia Tarazona and
               Stefan G{\"{o}}tz and
               David Montaner and
               Julieta Sol Dussaut and
               Joaqu{\'{\i}}n Dopazo and
               Ana Conesa},
  title     = {Pathway network inference from gene expression data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-2}},
  pages     = {S7},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S2-S7},
  doi       = {10.1186/1752-0509-8-S2-S7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PonzoniNTGMDDC14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/QianBMS14,
  author    = {Yu Qian and
               S{\o}ren Besenbacher and
               Thomas Mailund and
               Mikkel Heide Schierup},
  title     = {Identifying disease associated genes by network propagation},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-1}},
  pages     = {S6},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S1-S6},
  doi       = {10.1186/1752-0509-8-S1-S6},
  timestamp = {Sat, 30 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/QianBMS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/QiuTCA14,
  author    = {Yushan Qiu and
               Takeyuki Tamura and
               Wai{-}Ki Ching and
               Tatsuya Akutsu},
  title     = {On control of singleton attractors in multiple Boolean networks: integer
               programming-based method},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-1}},
  pages     = {S7},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S1-S7},
  doi       = {10.1186/1752-0509-8-S1-S7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/QiuTCA14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/QuekN14,
  author    = {Lake{-}Ee Quek and
               Lars K. Nielsen},
  title     = {A depth-first search algorithm to compute elementary flux modes by
               linear programming},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {94},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0094-2},
  doi       = {10.1186/s12918-014-0094-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/QuekN14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RanganathanTS14,
  author    = {Shoba Ranganathan and
               Tin Wee Tan and
               Christian Sch{\"{o}}nbach},
  title     = {InCoB2014: Systems Biology update from the Asia-Pacific},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-4}},
  pages     = {I1},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S4-I1},
  doi       = {10.1186/1752-0509-8-S4-I1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RanganathanTS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RaoSEBJ14,
  author    = {Shodhan Rao and
               Arjan van der Schaft and
               Karen van Eunen and
               Barbara M. Bakker and
               Bayu Jayawardhana},
  title     = {A model reduction method for biochemical reaction networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {52},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-52},
  doi       = {10.1186/1752-0509-8-52},
  timestamp = {Mon, 15 Jun 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RaoSEBJ14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ReshetovaSKW14,
  author    = {Polina Reshetova and
               Age K. Smilde and
               Antoine H. C. van Kampen and
               Johan A. Westerhuis},
  title     = {Use of prior knowledge for the analysis of high-throughput transcriptomics
               and metabolomics data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-2}},
  pages     = {S2},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S2-S2},
  doi       = {10.1186/1752-0509-8-S2-S2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ReshetovaSKW14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ReverterVO14,
  author    = {Ferran Reverter and
               Esteban Vegas and
               Josep M. Oller},
  title     = {Kernel-PCA data integration with enhanced interpretability},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-2}},
  pages     = {S6},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S2-S6},
  doi       = {10.1186/1752-0509-8-S2-S6},
  timestamp = {Tue, 18 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ReverterVO14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RocaPHHCPM14,
  author    = {Hernan Roca and
               Manjusha Pande and
               Jeffrey S. Huo and
               James Hernandez and
               James D. Cavalcoli and
               Kenneth J. Pienta and
               Richard C. McEachin},
  title     = {A bioinformatics approach reveals novel interactions of the {OVOL}
               transcription factors in the regulation of epithelial - mesenchymal
               cell reprogramming and cancer progression},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {29},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-29},
  doi       = {10.1186/1752-0509-8-29},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RocaPHHCPM14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RohE14,
  author    = {Min K. Roh and
               Philip Eckhoff},
  title     = {Stochastic parameter search for events},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {126},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0126-y},
  doi       = {10.1186/s12918-014-0126-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RohE14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RomanCA14,
  author    = {Magdalena San Rom{\'{a}}n and
               H{\'{e}}ctor Cancela and
               Luis Acerenza},
  title     = {Source and regulation of flux variability in Escherichia coli},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {67},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-67},
  doi       = {10.1186/1752-0509-8-67},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RomanCA14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Sands14,
  author    = {Timothy R. Sands},
  title     = {Annual Acknowledgement of Reviewers},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {11},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-11},
  doi       = {10.1186/1752-0509-8-11},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Sands14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SasabeSKKMM14,
  author    = {Masataka Sasabe and
               Sayumi Shintani and
               Reiko Kintaka and
               Kazunari Kaizu and
               Koji Makanae and
               Hisao Moriya},
  title     = {Evaluation of the lower protein limit in the budding yeast Saccharomyces
               cerevisiae using TIPI-gTOW},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {2},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-2},
  doi       = {10.1186/1752-0509-8-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SasabeSKKMM14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SchirmELS14,
  author    = {Sibylle Schirm and
               Christoph Engel and
               Markus Loeffler and
               Markus Scholz},
  title     = {Modelling chemotherapy effects on granulopoiesis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {138},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0138-7},
  doi       = {10.1186/s12918-014-0138-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SchirmELS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SchmidtFI14,
  author    = {Andreas Schmidt and
               Ignasi Forne and
               Axel Imhof},
  title     = {Bioinformatic analysis of proteomics data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-2}},
  pages     = {S3},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S2-S3},
  doi       = {10.1186/1752-0509-8-S2-S3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SchmidtFI14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Sebastian-LeonVMCTAASVMD14,
  author    = {Patricia Sebasti{\'{a}}n{-}Le{\'{o}}n and
               Enrique Vidal and
               Pablo Minguez and
               Ana Conesa and
               Sonia Tarazona and
               Alicia Amadoz and
               Carmen Armero and
               Francisco Salavert and
               Antonio Vidal{-}Puig and
               David Montaner and
               Joaqu{\'{\i}}n Dopazo},
  title     = {Understanding disease mechanisms with models of signaling pathway
               activities},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {121},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0121-3},
  doi       = {10.1186/s12918-014-0121-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Sebastian-LeonVMCTAASVMD14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SinhaSTNTKRC14,
  author    = {Neeraj Sinha and
               Sachin Sharma and
               Parul Tripathi and
               Simarjeet Negi and
               Kamiya Tikoo and
               Dhiraj Kumar and
               Kanury Rao and
               Samrat Chatterjee},
  title     = {Molecular signatures for obesity and associated disorders identified
               through partial least square regression models},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {104},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0104-4},
  doi       = {10.1186/s12918-014-0104-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SinhaSTNTKRC14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SongLA14,
  author    = {Ruijie Song and
               Ping Liu and
               Murat Acar},
  title     = {Network-dosage compensation topologies as recurrent network motifs
               in natural gene networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {69},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-69},
  doi       = {10.1186/1752-0509-8-69},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SongLA14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SrihariMSLSKR14,
  author    = {Sriganesh Srihari and
               Piyush B. Madhamshettiwar and
               Sarah Song and
               Chao Liu and
               Peter T. Simpson and
               Kum Khanna and
               Mark A. Ragan},
  title     = {Complex-based analysis of dysregulated cellular processes in cancer},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-4}},
  pages     = {S1},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S4-S1},
  doi       = {10.1186/1752-0509-8-S4-S1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SrihariMSLSKR14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SrivastavaKR14,
  author    = {Alok Srivastava and
               Suraj Kumar and
               Ramakrishna Ramaswamy},
  title     = {Two-layer modular analysis of gene and protein networks in breast
               cancer},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {81},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-81},
  doi       = {10.1186/1752-0509-8-81},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SrivastavaKR14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SriyudthsakSCYKOFNVSH14,
  author    = {Kansuporn Sriyudthsak and
               Yuji Sawada and
               Yukako Chiba and
               Yui Yamashita and
               Shigehiko Kanaya and
               Hitoshi Onouchi and
               Toru Fujiwara and
               Satoshi Naito and
               Eberhard O. Voit and
               Fumihide Shiraishi and
               Masami Y. Hirai},
  title     = {A U-system approach for predicting metabolic behaviors and responses
               based on an alleged metabolic reaction network},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-5}},
  pages     = {S4},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S5-S4},
  doi       = {10.1186/1752-0509-8-S5-S4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SriyudthsakSCYKOFNVSH14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SunKT14,
  author    = {Shuhao Sun and
               Fima C. Klebaner and
               Tianhai Tian},
  title     = {A new model of time scheme for progression of colorectal cancer},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-3}},
  pages     = {S2},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S3-S2},
  doi       = {10.1186/1752-0509-8-S3-S2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SunKT14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SzekelyBZB14,
  author    = {Tam{\'{a}}s Sz{\'{e}}kely and
               Kevin Burrage and
               Konstantinos C. Zygalakis and
               Manuel Barrio},
  title     = {Efficient simulation of stochastic chemical kinetics with the Stochastic
               Bulirsch-Stoer extrapolation method},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {71},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-71},
  doi       = {10.1186/1752-0509-8-71},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SzekelyBZB14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TanGHSB14,
  author    = {Chin Wee Tan and
               Bruce S. Gardiner and
               Yumiko Hirokawa and
               David W. Smith and
               Antony W. Burgess},
  title     = {Analysis of Wnt signaling {\(\beta\)}-catenin spatial dynamics in
               {HEK293T} cells},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {44},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-44},
  doi       = {10.1186/1752-0509-8-44},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TanGHSB14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TekuOV14,
  author    = {Gabriel N. Teku and
               Csaba P. Ortutay and
               Mauno Vihinen},
  title     = {Identification of core {T} cell network based on immunome interactome},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {17},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-17},
  doi       = {10.1186/1752-0509-8-17},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TekuOV14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TianK14,
  author    = {Dan Tian and
               Pamela K. Kreeger},
  title     = {Analysis of the quantitative balance between insulin-like growth factor
               {(IGF)-1} ligand, receptor, and binding protein levels to predict
               cell sensitivity and therapeutic efficacy},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {98},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0098-y},
  doi       = {10.1186/s12918-014-0098-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TianK14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TianS14,
  author    = {Tianhai Tian and
               Kate Smith{-}Miles},
  title     = {Mathematical modeling of GATA-switching for regulating the differentiation
               of hematopoietic stem cell},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-1}},
  pages     = {S8},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S1-S8},
  doi       = {10.1186/1752-0509-8-S1-S8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TianS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TianZHCZSXHW14,
  author    = {Ye Tian and
               Bai Zhang and
               Eric P. Hoffman and
               Robert Clarke and
               Zhen Zhang and
               Ie{-}Ming Shih and
               Jianhua Xuan and
               David M. Herrington and
               Yue Joseph Wang},
  title     = {Knowledge-fused differential dependency network models for detecting
               significant rewiring in biological networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {87},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0087-1},
  doi       = {10.1186/s12918-014-0087-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TianZHCZSXHW14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TomescuMT14,
  author    = {Oana A. Tomescu and
               Diethard Mattanovich and
               Gerhard G. Thallinger},
  title     = {Integrative omics analysis. {A} study based on Plasmodium falciparum
               mRNA and protein data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-2}},
  pages     = {S4},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S2-S4},
  doi       = {10.1186/1752-0509-8-S2-S4},
  timestamp = {Tue, 18 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TomescuMT14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TondelNLS14,
  author    = {Kristin T{\o}ndel and
               Steven Niederer and
               Sander Land and
               Nicolas Smith},
  title     = {Insight into model mechanisms through automatic parameter fitting:
               a new methodological framework for model development},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {59},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-59},
  doi       = {10.1186/1752-0509-8-59},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TondelNLS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TranOHPP14,
  author    = {Trish P. Tran and
               Edison Ong and
               Andrew P. Hodges and
               Giovanni Paternostro and
               Carlo Piermarocchi},
  title     = {Prediction of kinase inhibitor response using activity profiling,
               in vitro screening, and elastic net regression},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {74},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-74},
  doi       = {10.1186/1752-0509-8-74},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TranOHPP14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Trusina14,
  author    = {Ala Trusina},
  title     = {Stress induced telomere shortening: longer life with less mutations?},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {27},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-27},
  doi       = {10.1186/1752-0509-8-27},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Trusina14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TsengCSGSHTP14,
  author    = {Feng{-}Jen Tseng and
               Wei{-}Tso Chia and
               Jia{-}Fwu Shyu and
               Guo{-}Hau Gou and
               Huey{-}Kang Sytwu and
               Ching{-}Wu Hsia and
               Min{-}Jen Tseng and
               Ru{-}Yu Pan},
  title     = {Interactomics profiling of the negative regulatory function of carbon
               monoxide on RANKL-treated {RAW} 264.7 cells during osteoclastogenesis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {57},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-57},
  doi       = {10.1186/1752-0509-8-57},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TsengCSGSHTP14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/UsherenkoSMEKT14,
  author    = {Svetlana Usherenko and
               Hilke Stibbe and
               Massimiliano Musc{\`{o}} and
               Lars{-}Oliver Essen and
               Ekaterina A. Kostina and
               Christof Taxis},
  title     = {Photo-sensitive degron variants for tuning protein stability by light},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {128},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0128-9},
  doi       = {10.1186/s12918-014-0128-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/UsherenkoSMEKT14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/VaneeBSSKWDF14,
  author    = {Niti Vanee and
               J. Paul Brooks and
               Victor Spicer and
               Dmitriy Shamshurin and
               Oleg Krokhin and
               John A. Wilkins and
               Yu Deng and
               Stephen S. Fong},
  title     = {Proteomics-based metabolic modeling and characterization of the cellulolytic
               bacterium Thermobifida fusca},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {86},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0086-2},
  doi       = {10.1186/s12918-014-0086-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/VaneeBSSKWDF14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/VanlierTHR14,
  author    = {Joep Vanlier and
               Christian A. Tiemann and
               Peter A. J. Hilbers and
               Natal A. W. van Riel},
  title     = {Optimal experiment design for model selection in biochemical networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {20},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-20},
  doi       = {10.1186/1752-0509-8-20},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/VanlierTHR14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Vera-LiconaJGML14,
  author    = {Paola Vera{-}Licona and
               Abdul Salam Jarrah and
               Luis David Garc{\'{\i}}a{-}Puente and
               John McGee and
               Reinhard C. Laubenbacher},
  title     = {An Algebra-Based Method for Inferring Gene Regulatory Networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {37},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-37},
  doi       = {10.1186/1752-0509-8-37},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Vera-LiconaJGML14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/VercammenLI14,
  author    = {Dominique Vercammen and
               Filip Logist and
               Jan F. M. Van Impe},
  title     = {Dynamic estimation of specific fluxes in metabolic networks using
               non-linear dynamic optimization},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {132},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0132-0},
  doi       = {10.1186/s12918-014-0132-0},
  timestamp = {Sat, 30 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/VercammenLI14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/VerdCJ14,
  author    = {Berta Verd and
               Anton Crombach and
               Johannes Jaeger},
  title     = {Classification of transient behaviours in a time-dependent toggle
               switch model},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {43},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-43},
  doi       = {10.1186/1752-0509-8-43},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/VerdCJ14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/VermeerschWMS14,
  author    = {Kathleen A. Vermeersch and
               Lijuan Wang and
               John F. McDonald and
               Mark P. Styczynski},
  title     = {Distinct metabolic responses of an ovarian cancer stem cell line},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {134},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0134-y},
  doi       = {10.1186/s12918-014-0134-y},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/VermeerschWMS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WalshSD14,
  author    = {Jesse R. Walsh and
               Taner Z. Sen and
               Julie A. Dickerson},
  title     = {A computational platform to maintain and migrate manual functional
               annotations for BioCyc databases},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {115},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0115-1},
  doi       = {10.1186/s12918-014-0115-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WalshSD14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WaltherHM14,
  author    = {Georg R. Walther and
               Matthew Hartley and
               Maya Mincheva},
  title     = {GraTeLPy: graph-theoretic linear stability analysis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {22},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-22},
  doi       = {10.1186/1752-0509-8-22},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WaltherHM14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WangCNCST14,
  author    = {Charles C. N. Wang and
               Pei{-}Chun Chang and
               Ka{-}Lok Ng and
               Chun{-}Ming Chang and
               Phillip C.{-}Y. Sheu and
               Jeffrey J. P. Tsai},
  title     = {A model comparison study of the flowering time regulatory network
               in Arabidopsis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {15},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-15},
  doi       = {10.1186/1752-0509-8-15},
  timestamp = {Mon, 15 Jun 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WangCNCST14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WangKG14,
  author    = {Xiaolei Wang and
               Hiroyuki Kuwahara and
               Xin Gao},
  title     = {Modeling {DNA} affinity landscape through two-round support vector
               regression with weighted degree kernels},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-5}},
  pages     = {S5},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S5-S5},
  doi       = {10.1186/1752-0509-8-S5-S5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WangKG14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WangQ14,
  author    = {Yijie Wang and
               Xiaoning Qian},
  title     = {Joint clustering of protein interaction networks through Markov random
               walk},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-1}},
  pages     = {S9},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S1-S9},
  doi       = {10.1186/1752-0509-8-S1-S9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WangQ14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WangSSWSS14,
  author    = {Kaier Wang and
               Moira L. Steyn{-}Ross and
               D. A. Steyn{-}Ross and
               Marcus T. Wilson and
               Jamie W. Sleigh and
               Yoichi Shiraishi},
  title     = {Simulations of pattern dynamics for reaction-diffusion systems via
               {SIMULINK}},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {45},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-45},
  doi       = {10.1186/1752-0509-8-45},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WangSSWSS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WeaverKMPK14,
  author    = {Daniel S. Weaver and
               Ingrid M. Keseler and
               Amanda Mackie and
               Ian T. Paulsen and
               Peter D. Karp},
  title     = {A genome-scale metabolic flux model of Escherichia coli {K-12} derived
               from the EcoCyc database},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {79},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-79},
  doi       = {10.1186/1752-0509-8-79},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WeaverKMPK14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WimalaratneGHNL14,
  author    = {Sarala M. Wimalaratne and
               Pierre Grenon and
               Henning Hermjakob and
               Nicolas Le Nov{\`{e}}re and
               Camille Laibe},
  title     = {BioModels linked dataset},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {91},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0091-5},
  doi       = {10.1186/s12918-014-0091-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WimalaratneGHNL14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WollboldJMRW14,
  author    = {Johannes Wollbold and
               Robert Jaster and
               Sarah M{\"{u}}ller and
               Katja Rateitschak and
               Olaf Wolkenhauer},
  title     = {Anti-inflammatory effects of reactive oxygen species - a multi-valued
               logical model validated by formal concept analysis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {101},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0101-7},
  doi       = {10.1186/s12918-014-0101-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WollboldJMRW14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WuKLZ14,
  author    = {Min Wu and
               Chee Keong Kwoh and
               Xiaoli Li and
               Jie Zheng},
  title     = {Finding trans-regulatory genes and protein complexes modulating meiotic
               recombination hotspots of human, mouse and yeast},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {107},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0107-1},
  doi       = {10.1186/s12918-014-0107-1},
  timestamp = {Fri, 28 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WuKLZ14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WuWYC14,
  author    = {Wei{-}Sheng Wu and
               Ming{-}Liang Wei and
               Chia{-}Ming Yeh and
               Darby Tien{-}Hao Chang},
  title     = {A regulatory similarity measure using the location information of
               transcription factor binding sites in Saccharomyces cerevisiae},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-5}},
  pages     = {S9},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S5-S9},
  doi       = {10.1186/1752-0509-8-S5-S9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WuWYC14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/XiZWW14,
  author    = {Yanping Xi and
               Yue Zhao and
               Li Wang and
               Fei Wang},
  title     = {Comparison on extreme pathways reveals nature of different biological
               processes},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-1}},
  pages     = {S10},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S1-S10},
  doi       = {10.1186/1752-0509-8-S1-S10},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/XiZWW14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YanW14,
  author    = {Changhui Yan and
               Yingfeng Wang},
  title     = {A graph kernel method for DNA-binding site prediction},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-4}},
  pages     = {S10},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S4-S10},
  doi       = {10.1186/1752-0509-8-S4-S10},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YanW14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YangGXW14,
  author    = {Jialiang Yang and
               Stefan Gr{\"{u}}newald and
               Yifei Xu and
               Xiu{-}Feng Wan},
  title     = {Quartet-based methods to reconstruct phylogenetic networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {21},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-21},
  doi       = {10.1186/1752-0509-8-21},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YangGXW14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YangSOCLN14,
  author    = {Peng Yang and
               Xiaoquan Su and
               Le Ou{-}Yang and
               Hon Nian Chua and
               Xiaoli Li and
               Kang Ning},
  title     = {Microbial community pattern detection in human body habitats via ensemble
               clustering framework},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-4}},
  pages     = {S7},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S4-S7},
  doi       = {10.1186/1752-0509-8-S4-S7},
  timestamp = {Fri, 03 Jul 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YangSOCLN14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YangWHW14,
  author    = {Tzu{-}Hsien Yang and
               Chung{-}Ching Wang and
               Po{-}Cheng Hung and
               Wei{-}Sheng Wu},
  title     = {cisMEP: an integrated repository of genomic epigenetic profiles and
               cis-regulatory modules in Drosophila},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-4}},
  pages     = {S8},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S4-S8},
  doi       = {10.1186/1752-0509-8-S4-S8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YangWHW14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YongMW14,
  author    = {Chern Han Yong and
               Osamu Maruyama and
               Limsoon Wong},
  title     = {Discovery of small protein complexes from {PPI} networks with size-specific
               supervised weighting},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-5}},
  pages     = {S3},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S5-S3},
  doi       = {10.1186/1752-0509-8-S5-S3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YongMW14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YoungRY14,
  author    = {William Chad Young and
               Adrian E. Raftery and
               Ka Yee Yeung},
  title     = {Fast Bayesian inference for gene regulatory networks using ScanBMA},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {47},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-47},
  doi       = {10.1186/1752-0509-8-47},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YoungRY14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YuY0LWY14,
  author    = {Feng Yu and
               Zhi{-}Hao Yang and
               Nan Tang and
               Hong Lin and
               Jian Wang and
               Zhiwei Yang},
  title     = {Predicting protein complex in protein interaction network - a supervised
               learning based method},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  number    = {{S-3}},
  pages     = {S4},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-S3-S4},
  doi       = {10.1186/1752-0509-8-S3-S4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YuY0LWY14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhangBW14,
  author    = {Qingyang Zhang and
               Joanna E. Burdette and
               Ji{-}Ping Wang},
  title     = {Integrative network analysis of {TCGA} data for ovarian cancer},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {1338},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0136-9},
  doi       = {10.1186/s12918-014-0136-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhangBW14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhangSYW14,
  title     = {Retraction Note: Predicting new molecular targets for rhein using
               network pharmacology},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {105},
  year      = {2014},
  url       = {https://doi.org/10.1186/s12918-014-0105-3},
  doi       = {10.1186/s12918-014-0105-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhangSYW14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhaoK14,
  author    = {Yun{-}Bo Zhao and
               J. Krishnan},
  title     = {mRNA translation and protein synthesis: an analysis of different modelling
               methodologies and a new {PBN} based approach},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {25},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-25},
  doi       = {10.1186/1752-0509-8-25},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhaoK14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhengCCBXCN14,
  author    = {Zhenzhen Zheng and
               Scott Christley and
               William T. Chiu and
               Ira L. Blitz and
               Xiaohui Xie and
               Ken W. Y. Cho and
               Qing Nie},
  title     = {Inference of the Xenopus tropicalis embryonic regulatory network and
               spatial gene expression patterns},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {3},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-3},
  doi       = {10.1186/1752-0509-8-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhengCCBXCN14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhuC14,
  author    = {Wei Zhu and
               Yi{-}Ping Phoebe Chen},
  title     = {Computational developments in microRNA-regulated protein-protein interactions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {14},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-14},
  doi       = {10.1186/1752-0509-8-14},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhuC14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhuLH14,
  author    = {Peican Zhu and
               Jinghang Liang and
               Jie Han},
  title     = {Gene perturbation and intervention in context-sensitive stochastic
               Boolean networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {8},
  pages     = {60},
  year      = {2014},
  url       = {https://doi.org/10.1186/1752-0509-8-60},
  doi       = {10.1186/1752-0509-8-60},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhuLH14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AitkenA13,
  author    = {Stuart Aitken and
               Ozgur E. Akman},
  title     = {Nested sampling for parameter inference in systems biology: application
               to an exemplar circadian model},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {72},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-72},
  doi       = {10.1186/1752-0509-7-72},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AitkenA13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AmaraCCPCFBP13,
  author    = {Flavio Amara and
               Riccardo Colombo and
               Paolo Cazzaniga and
               Dario Pescini and
               Attila Csik{\'{a}}sz{-}Nagy and
               Marco Falconi and
               Daniela Besozzi and
               Paolo Plevani},
  title     = {In vivo and in silico analysis of {PCNA} ubiquitylation in the activation
               of the Post Replication Repair pathway in S. cerevisiae},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {24},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-24},
  doi       = {10.1186/1752-0509-7-24},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AmaraCCPCFBP13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AzmiBBPLYDRSM13,
  author    = {Asfar S. Azmi and
               Aliccia Bollig{-}Fischer and
               Bin Bao and
               Bum{-}Joon Park and
               Sun{-}Hye Lee and
               Gyu Yong{-}Song and
               Gregory Dyson and
               Chandan K. Reddy and
               Fazlul H. Sarkar and
               Ramzi M. Mohammad},
  title     = {Systems analysis reveals a transcriptional reversal of the mesenchymal
               phenotype induced by SNAIL-inhibitor {GN-25}},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {85},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-85},
  doi       = {10.1186/1752-0509-7-85},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AzmiBBPLYDRSM13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BackZB13,
  author    = {Walter de Back and
               Roland Zimm and
               Lutz Brusch},
  title     = {Transdifferentiation of pancreatic cells by loss of contact-mediated
               signaling},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {77},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-77},
  doi       = {10.1186/1752-0509-7-77},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BackZB13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BaeRCHKK13,
  author    = {Taejeong Bae and
               Kyoohyoung Rho and
               Jin Woo Choi and
               Katsuhisa Horimoto and
               Wan Kyu Kim and
               Sunghoon Kim},
  title     = {Identification of upstream regulators for prognostic expression signature
               genes in colorectal cancer},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {86},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-86},
  doi       = {10.1186/1752-0509-7-86},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BaeRCHKK13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BarbaDLL13,
  author    = {Matthieu Barba and
               Rapha{\"{e}}l Dutoit and
               Christianne Legrain and
               Bernard Labedan},
  title     = {Identifying reaction modules in metabolic pathways: bioinformatic
               deduction and experimental validation of a new putative route in purine
               catabolism},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {99},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-99},
  doi       = {10.1186/1752-0509-7-99},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BarbaDLL13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BatagovYJTNK13,
  author    = {Arsen O. Batagov and
               Aliaksandr A. Yarmishyn and
               Piroon Jenjaroenpun and
               Jovina Z. Tan and
               Yuichiro Nishida and
               Igor Kurochkin},
  title     = {Role of genomic architecture in the expression dynamics of long noncoding
               RNAs during differentiation of human neuroblastoma cells},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-3}},
  pages     = {S11},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S3-S11},
  doi       = {10.1186/1752-0509-7-S3-S11},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BatagovYJTNK13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BaumlerMRP13,
  author    = {David J. Baumler and
               Bing Ma and
               Jennifer L. Reed and
               Nicole T. Perna},
  title     = {Inferring ancient metabolism using ancestral core metabolic models
               of enterobacteria},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {46},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-46},
  doi       = {10.1186/1752-0509-7-46},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BaumlerMRP13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BeiH13,
  author    = {Yuanzhe Bei and
               Pengyu Hong},
  title     = {A novel approach to minimize false discovery rate in genome-wide data
               analysis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-4}},
  pages     = {S1},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S4-S1},
  doi       = {10.1186/1752-0509-7-S4-S1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BeiH13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BershteynE13,
  author    = {Anna Bershteyn and
               Philip A. Eckhoff},
  title     = {A model of {HIV} drug resistance driven by heterogeneities in host
               immunity and adherence patterns},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {11},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-11},
  doi       = {10.1186/1752-0509-7-11},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BershteynE13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BesshoSSSMWKDJB13,
  author    = {Kazuhiko Bessho and
               Kumar Shanmukhappa and
               Rachel Sheridan and
               Pranavkumar Shivakumar and
               Reena Mourya and
               Stephanie Walters and
               Vivek Kaimal and
               Eric Dilbone and
               Anil G. Jegga and
               Jorge A. Bezerra},
  title     = {Integrative genomics identifies candidate microRNAs for pathogenesis
               of experimental biliary atresia},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {104},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-104},
  doi       = {10.1186/1752-0509-7-104},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BesshoSSSMWKDJB13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BockmayrKGDB13,
  author    = {Michael Bockmayr and
               Frederick Klauschen and
               Balazs Gy{\"{o}}rffy and
               Carsten Denkert and
               Jan Budczies},
  title     = {New network topology approaches reveal differential correlation patterns
               in breast cancer},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {78},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-78},
  doi       = {10.1186/1752-0509-7-78},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BockmayrKGDB13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BogdalHKL13,
  author    = {Marta N. Bogdal and
               Beata Hat and
               Marek Kochanczyk and
               Tomasz Lipniacki},
  title     = {Levels of pro-apoptotic regulator Bad and anti-apoptotic regulator
               Bcl-xL determine the type of the apoptotic logic gate},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {67},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-67},
  doi       = {10.1186/1752-0509-7-67},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BogdalHKL13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BonnetCRSBZ13,
  author    = {Eric Bonnet and
               Laurence Calzone and
               Daniel Rovera and
               Gautier Stoll and
               Emmanuel Barillot and
               Andrei Yu. Zinovyev},
  title     = {BiNoM 2.0, a Cytoscape plugin for accessing and analyzing pathways
               using standard systems biology formats},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {18},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-18},
  doi       = {10.1186/1752-0509-7-18},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BonnetCRSBZ13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BorgosBSEJBENV13,
  author    = {Sven E. F. Borgos and
               Sergio Bordel and
               H{\aa}vard Sletta and
               Helga Ertesv{\aa}g and
               {\O}yvind M. Jakobsen and
               Per Bruheim and
               Trond E. Ellingsen and
               Jens Nielsen and
               Svein Valla},
  title     = {Mapping global effects of the anti-sigma factor MucA in Pseudomonas
               fluorescens {SBW25} through genome-scale metabolic modeling},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {19},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-19},
  doi       = {10.1186/1752-0509-7-19},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BorgosBSEJBENV13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BrenHDKA13,
  author    = {Anat Bren and
               Yuval Hart and
               Erez Dekel and
               Daniel Koster and
               Uri Alon},
  title     = {The last generation of bacterial growth in limiting nutrient},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {27},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-27},
  doi       = {10.1186/1752-0509-7-27},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BrenHDKA13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BryantSP13,
  author    = {William A. Bryant and
               Michael J. E. Sternberg and
               John W. Pinney},
  title     = {{AMBIENT:} Active Modules for Bipartite Networks - using high-throughput
               transcriptomic data to dissect metabolic response},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {26},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-26},
  doi       = {10.1186/1752-0509-7-26},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BryantSP13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BuCJ13,
  author    = {Jingde Bu and
               Xuebin Chi and
               Zhong Jin},
  title     = {{HSA:} {A} Heuristic Splice Alignment Tool},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-2}},
  pages     = {S10},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S2-S10},
  doi       = {10.1186/1752-0509-7-S2-S10},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BuCJ13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BuchelRSWCKMSGGIKRWHHK0MZCSSLDN13,
  author    = {Finja B{\"{u}}chel and
               Nicolas Rodriguez and
               Neil Swainston and
               Clemens Wrzodek and
               Tobias Czauderna and
               Roland Keller and
               Florian Mittag and
               Michael Schubert and
               Mihai Glont and
               Martin Golebiewski and
               Martijn P. van Iersel and
               Sarah M. Keating and
               Matthias Rall and
               Michael Wybrow and
               Henning Hermjakob and
               Michael Hucka and
               Douglas B. Kell and
               Wolfgang M{\"{u}}ller and
               Pedro Mendes and
               Andreas Zell and
               Claudine Chaouiya and
               Julio Saez{-}Rodriguez and
               Falk Schreiber and
               Camille Laibe and
               Andreas Dr{\"{a}}ger and
               Nicolas Le Nov{\`{e}}re},
  title     = {Path2Models: large-scale generation of computational models from biochemical
               pathway maps},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {116},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-116},
  doi       = {10.1186/1752-0509-7-116},
  timestamp = {Sat, 05 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BuchelRSWCKMSGGIKRWHHK0MZCSSLDN13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BuddSWJZ13,
  author    = {William T. Budd and
               Sarah Seashols and
               Danielle Weaver and
               Cyriac Joseph and
               Zendra E. Zehner},
  title     = {A networks method for ranking microRNA dysregulation in cancer},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-5}},
  pages     = {S3},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S5-S3},
  doi       = {10.1186/1752-0509-7-S5-S3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BuddSWJZ13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CarreraJ13,
  author    = {Javier Carrera and
               Alfonso Jaramillo},
  title     = {Automated design of bacterial genome sequences},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {108},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-108},
  doi       = {10.1186/1752-0509-7-108},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CarreraJ13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChangXBP13,
  author    = {Roger L. Chang and
               Lei Xie and
               Philip E. Bourne and
               Bernhard O. Palsson},
  title     = {Antibacterial mechanisms identified through structural systems pharmacology},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {102},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-102},
  doi       = {10.1186/1752-0509-7-102},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChangXBP13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChaouiyaBKNIRDBCKWGDPMKXJHKTNSH13,
  author    = {Claudine Chaouiya and
               Duncan B{\'{e}}renguier and
               Sarah M. Keating and
               Aur{\'{e}}lien Naldi and
               Martijn P. van Iersel and
               Nicolas Rodriguez and
               Andreas Dr{\"{a}}ger and
               Finja B{\"{u}}chel and
               Thomas Cokelaer and
               Bryan M. Kowal and
               Benjamin Wicks and
               Emanuel J. V. Gon{\c{c}}alves and
               Julien Dorier and
               Michel Page and
               Pedro T. Monteiro and
               Axel von Kamp and
               Ioannis Xenarios and
               Hidde de Jong and
               Michael Hucka and
               Steffen Klamt and
               Denis Thieffry and
               Nicolas Le Nov{\`{e}}re and
               Julio Saez{-}Rodriguez and
               Tom{\'{a}}s Helikar},
  title     = {{SBML} qualitative models: a model representation format and infrastructure
               to foster interactions between qualitative modelling formalisms and
               tools},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {135},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-135},
  doi       = {10.1186/1752-0509-7-135},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChaouiyaBKNIRDBCKWGDPMKXJHKTNSH13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChenYHL13,
  author    = {Yi{-}Min Chen and
               Chun{-}Hui Yu and
               Chi{-}Chuan Hwang and
               Tsunglin Liu},
  title     = {{OMACC:} an Optical-Map-Assisted Contig Connector for improving de
               novo genome assembly},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-6}},
  pages     = {S7},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S6-S7},
  doi       = {10.1186/1752-0509-7-S6-S7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChenYHL13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChengC13,
  author    = {Wan{-}Shu Cheng and
               Jung{-}Hsien Chiang},
  title     = {CGPredictor: a systematic integrated analytic tool for mining and
               examining genome-scale cancer independent prognostic epigenetic marker
               panels},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-6}},
  pages     = {S10},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S6-S10},
  doi       = {10.1186/1752-0509-7-S6-S10},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChengC13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChengFSG13,
  author    = {Chao Cheng and
               Yao Fu and
               Linsheng Shen and
               Mark Gerstein},
  title     = {Identification of yeast cell cycle regulated genes based on genomic
               features},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {70},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-70},
  doi       = {10.1186/1752-0509-7-70},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChengFSG13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChengGSZML13,
  author    = {Jie Cheng and
               Joel Greshock and
               Leming Shi and
               Shu Zheng and
               Alan Menius and
               Kwan Lee},
  title     = {Good practice guidelines for biomarker discovery from array data:
               a case study for breast cancer prognosis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-4}},
  pages     = {S2},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S4-S2},
  doi       = {10.1186/1752-0509-7-S4-S2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChengGSZML13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChiuCWW13,
  author    = {Chia{-}Chun Chiu and
               Shih{-}Yao Chan and
               Chung{-}Ching Wang and
               Wei{-}Sheng Wu},
  title     = {Missing value imputation for microarray data: a comprehensive comparison
               study and a web tool},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-6}},
  pages     = {S12},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S6-S12},
  doi       = {10.1186/1752-0509-7-S6-S12},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChiuCWW13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChoWZTNC13,
  author    = {Hyunju Cho and
               Ming Wu and
               Linxia Zhang and
               Ryan Thompson and
               Aritro Nath and
               Christina Chan},
  title     = {Signaling dynamics of palmitate-induced {ER} stress responses mediated
               by {ATF4} in HepG2 cells},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {9},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-9},
  doi       = {10.1186/1752-0509-7-9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChoWZTNC13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChoiP13,
  author    = {Jiin Choi and
               Taesung Park},
  title     = {Multivariate generalized multifactor dimensionality reduction to detect
               gene-gene interactions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-6}},
  pages     = {S15},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S6-S15},
  doi       = {10.1186/1752-0509-7-S6-S15},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChoiP13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChumnanpuenNN13,
  author    = {Pramote Chumnanpuen and
               Intawat Nookaew and
               Jens Nielsen},
  title     = {Integrated analysis, transcriptome-lipidome, reveals the effects of
               INO-level {(INO2} and {INO4)} on lipid metabolism in yeast},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-3}},
  pages     = {S7},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S3-S7},
  doi       = {10.1186/1752-0509-7-S3-S7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChumnanpuenNN13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CoskunCLDOO13,
  author    = {Sarp A. Coskun and
               A. Ercument Cicek and
               Nicola Lai and
               Ranjan K. Dash and
               Z. Meral {\"{O}}zsoyoglu and
               Gultekin {\"{O}}zsoyoglu},
  title     = {An online model composition tool for system biology models},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {88},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-88},
  doi       = {10.1186/1752-0509-7-88},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CoskunCLDOO13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CrespoPJS13,
  author    = {Isaac Crespo and
               Thanneer M. Perumal and
               Wiktor Jurkowski and
               Antonio del Sol},
  title     = {Detecting cellular reprogramming determinants by differential stability
               analysis of gene regulatory networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {140},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-140},
  doi       = {10.1186/1752-0509-7-140},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CrespoPJS13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/DeminSSCPFBD13,
  author    = {Oleg O. Demin and
               Sergey V. Smirnov and
               Victor V. Sokolov and
               Lourdes Cucurull{-}Sanchez and
               C{\'{e}}sar Pichardo{-}Almarza and
               M. Victoria Flores and
               Neil Benson and
               Oleg V. Demin},
  title     = {Modeling of celiac disease immune response and the therapeutic effect
               of potential drugs},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {56},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-56},
  doi       = {10.1186/1752-0509-7-56},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/DeminSSCPFBD13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/DengGW13,
  author    = {Yue Deng and
               Lin Gao and
               Bingbo Wang},
  title     = {ppiPre: predicting protein-protein interactions by combining heterogeneous
               features},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-2}},
  pages     = {S8},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S2-S8},
  doi       = {10.1186/1752-0509-7-S2-S8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/DengGW13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/DentN13,
  author    = {Jennifer E. Dent and
               Christine Nardini},
  title     = {From desk to bed: Computational simulations provide indication for
               rheumatoid arthritis clinical trials},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {10},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-10},
  doi       = {10.1186/1752-0509-7-10},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/DentN13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/EbrahimLPH13,
  author    = {Ali Ebrahim and
               Joshua A. Lerman and
               Bernhard {\O}. Palsson and
               Daniel R. Hyduke},
  title     = {COBRApy: COnstraints-Based Reconstruction and Analysis for Python},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {74},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-74},
  doi       = {10.1186/1752-0509-7-74},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/EbrahimLPH13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/EisenhaberSW13,
  author    = {Frank Eisenhaber and
               Wing{-}Kin Sung and
               Limsoon Wong},
  title     = {International Conference on Genome Informatics {(GIW} 2013) in Singapore:
               introduction to the systems biology contributions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-6}},
  pages     = {I1},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S6-I1},
  doi       = {10.1186/1752-0509-7-S6-I1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/EisenhaberSW13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ErgulerPD13,
  author    = {Kamil Erguler and
               Myrtani Pieri and
               Constantinos Deltas},
  title     = {A mathematical model of the unfolded protein stress response reveals
               the decision mechanism for recovery, adaptation and apoptosis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {16},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-16},
  doi       = {10.1186/1752-0509-7-16},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ErgulerPD13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FazekasKTMPDZSLFVCK13,
  author    = {D{\'{a}}vid Fazekas and
               Mih{\'{a}}ly Koltai and
               D{\'{e}}nes T{\"{u}}rei and
               Dezso M{\'{o}}dos and
               M{\'{a}}t{\'{e}} P{\'{a}}lfy and
               Zolt{\'{a}}n D{\'{u}}l and
               Lilian Zs{\'{a}}kai and
               M{\'{a}}t{\'{e}} Szalay{-}Beko and
               Katalin Lenti and
               Ill{\'{e}}s J. Farkas and
               Tibor Vellai and
               Peter Csermely and
               Tam{\'{a}}s Korcsm{\'{a}}ros},
  title     = {SignaLink 2 - a signaling pathway resource with multi-layered regulatory
               networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {7},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-7},
  doi       = {10.1186/1752-0509-7-7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FazekasKTMPDZSLFVCK13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FeltusFGS13,
  author    = {Frank Alex Feltus and
               Stephen P. Ficklin and
               Scott M. Gibson and
               Melissa C. Smith},
  title     = {Maximizing capture of gene co-expression relationships through pre-clustering
               of input expression samples: an Arabidopsis case study},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {44},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-44},
  doi       = {10.1186/1752-0509-7-44},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FeltusFGS13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FlottmannKKK13,
  author    = {Max Fl{\"{o}}ttmann and
               Falko Krause and
               Edda Klipp and
               Marcus Krantz},
  title     = {Reaction-contingency based bipartite Boolean modelling},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {58},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-58},
  doi       = {10.1186/1752-0509-7-58},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FlottmannKKK13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Freyre-GonzalezMMMPG13,
  author    = {Julio A. Freyre{-}Gonz{\'{a}}lez and
               Alejandra M. Manjarrez{-}Casas and
               Enrique Merino and
               Mario Martinez{-}Nu{\~{n}}ez and
               Ernesto P{\'{e}}rez{-}Rueda and
               Rosa{-}Mar{\'{\i}}a Guti{\'{e}}rrez{-}R{\'{\i}}os},
  title     = {Lessons from the modular organization of the transcriptional regulatory
               network of Bacillus subtilis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {127},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-127},
  doi       = {10.1186/1752-0509-7-127},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Freyre-GonzalezMMMPG13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GathererG13,
  author    = {Derek Gatherer and
               Vashti Galpin},
  title     = {Rosen's (M, {R)} system in process algebra},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {128},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-128},
  doi       = {10.1186/1752-0509-7-128},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GathererG13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Gelius-DietrichDFL13,
  author    = {Gabriel Gelius{-}Dietrich and
               Abdelmoneim Amer Desouki and
               Claus Fritzemeier and
               Martin J. Lercher},
  title     = {sybil - Efficient constraint-based modelling in {R}},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {125},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-125},
  doi       = {10.1186/1752-0509-7-125},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Gelius-DietrichDFL13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GhersiS13,
  author    = {Dario Ghersi and
               Mona Singh},
  title     = {Disentangling function from topology to infer the network properties
               of disease genes},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {5},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-5},
  doi       = {10.1186/1752-0509-7-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GhersiS13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GhoshBMAC13,
  author    = {Soma Ghosh and
               Priyanka Baloni and
               Sumanta Mukherjee and
               Praveen Anand and
               Nagasuma R. Chandra},
  title     = {A multi-level multi-scale approach to study essential genes in Mycobacterium
               tuberculosis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {132},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-132},
  doi       = {10.1186/1752-0509-7-132},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GhoshBMAC13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GoebelsF13,
  author    = {Florian Goebels and
               Dmitrij Frishman},
  title     = {Prediction of protein interaction types based on sequence and network
               features},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-6}},
  pages     = {S5},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S6-S5},
  doi       = {10.1186/1752-0509-7-S6-S5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GoebelsF13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Gong13,
  author    = {Haijun Gong},
  title     = {Analysis of intercellular signal transduction in the tumor microenvironment},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-3}},
  pages     = {S5},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S3-S5},
  doi       = {10.1186/1752-0509-7-S3-S5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Gong13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GonzalesKSM13,
  author    = {Kevin Gonzales and
               {\"{O}}m{\"{u}}r Kayik{\c{c}}i and
               David G. Schaeffer and
               Paul M. Magwene},
  title     = {Modeling mutant phenotypes and oscillatory dynamics in the Saccharomyces
               cerevisiae cAMP-PKA pathway},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {40},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-40},
  doi       = {10.1186/1752-0509-7-40},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GonzalesKSM13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Greenfest-AllenMPS13,
  author    = {Emily Greenfest{-}Allen and
               Jeffrey Malik and
               James Palis and
               Christian J. Stoeckert Jr.},
  title     = {Stat and interferon genes identified by network analysis differentially
               regulate primitive and definitive erythropoiesis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {38},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-38},
  doi       = {10.1186/1752-0509-7-38},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Greenfest-AllenMPS13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Guillen-GosalbezMASJ13,
  author    = {Gonzalo Guill{\'{e}}n{-}Gos{\'{a}}lbez and
               Antoni Mir{\'{o}} and
               Rui Alves and
               Albert Sorribas and
               Laureano Jim{\'{e}}nez},
  title     = {Identification of regulatory structure and kinetic parameters of biochemical
               networks via mixed-integer dynamic optimization},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {113},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-113},
  doi       = {10.1186/1752-0509-7-113},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Guillen-GosalbezMASJ13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HakkinenTYIR13,
  author    = {Antti H{\"{a}}kkinen and
               Huy Tran and
               Olli Yli{-}Harja and
               Brian Ingalls and
               Andre S. Ribeiro},
  title     = {Effects of multimerization on the temporal variability of protein
               complex abundance},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-1}},
  pages     = {S3},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S1-S3},
  doi       = {10.1186/1752-0509-7-S1-S3},
  timestamp = {Sat, 30 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HakkinenTYIR13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HasanKK13,
  author    = {Md Mahmudul Hasan and
               Yusuf Kavurucu and
               Tamer Kahveci},
  title     = {A scalable method for discovering significant subnetworks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-4}},
  pages     = {S3},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S4-S3},
  doi       = {10.1186/1752-0509-7-S4-S3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HasanKK13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HassanFMHA13,
  author    = {Syeda Hassan and
               Muhammad Farhan and
               Rahul Mangayil and
               Heikki Huttunen and
               Tommi Aho},
  title     = {Bioprocess data mining using regularized regression and random forests},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-1}},
  pages     = {S5},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S1-S5},
  doi       = {10.1186/1752-0509-7-S1-S5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HassanFMHA13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HayashidaKSA13,
  author    = {Morihiro Hayashida and
               Mayumi Kamada and
               Jiangning Song and
               Tatsuya Akutsu},
  title     = {Prediction of protein-RNA residue-base contacts using two-dimensional
               conditional random field with the lasso},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-2}},
  pages     = {S15},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S2-S15},
  doi       = {10.1186/1752-0509-7-S2-S15},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HayashidaKSA13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HeFW13,
  author    = {Fei He and
               Vincent Fromion and
               Hans V. Westerhoff},
  title     = {(Im)Perfect robustness and adaptation of metabolic networks subject
               to metabolic and gene-expression regulation: marrying control engineering
               with metabolic control analysis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {131},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-131},
  doi       = {10.1186/1752-0509-7-131},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HeFW13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HettlingAHBGB13,
  author    = {Hannes Hettling and
               David J. C. Alders and
               Jaap Heringa and
               Thomas W. Binsl and
               A. B. Johan Groeneveld and
               Johannes H. G. M. van Beek},
  title     = {Computational estimation of tricarboxylic acid cycle fluxes using
               noisy {NMR} data from cardiac biopsies},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {82},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-82},
  doi       = {10.1186/1752-0509-7-82},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HettlingAHBGB13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HockNHWLTWPT13,
  author    = {Sabrina Hock and
               Yen{-}Kar Ng and
               Jan Hasenauer and
               Dominik M. Wittmann and
               Dominik Lutter and
               Dietrich Tr{\"{u}}mbach and
               Wolfgang Wurst and
               Nilima Prakash and
               Fabian J. Theis},
  title     = {Sharpening of expression domains induced by transcription and microRNA
               regulation within a spatio-temporal model of mid-hindbrain boundary
               formation},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {48},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-48},
  doi       = {10.1186/1752-0509-7-48},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HockNHWLTWPT13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HoffmannS13,
  author    = {Max Hoffmann and
               Ulrich S. Schwarz},
  title     = {A kinetic model for RNA-interference of focal adhesions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {2},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-2},
  doi       = {10.1186/1752-0509-7-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HoffmannS13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HuLYCLHS13,
  author    = {Yangfan Hu and
               Jinquan Li and
               Wenying Yan and
               Jiajia Chen and
               Yin Li and
               Guang Hu and
               Bairong Shen},
  title     = {Identifying novel glioma associated pathways based on systems biology
               level meta-analysis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-2}},
  pages     = {S9},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S2-S9},
  doi       = {10.1186/1752-0509-7-S2-S9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HuLYCLHS13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HuMZ13,
  author    = {Xingchi Hu and
               Chuang Ma and
               Yanhong Zhou},
  title     = {A novel two-layer {SVM} model in miRNA Drosha processing site detection},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-4}},
  pages     = {S4},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S4-S4},
  doi       = {10.1186/1752-0509-7-S4-S4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HuMZ13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HuangWZ13,
  author    = {Qiang Huang and
               Ling{-}Yun Wu and
               Xiang{-}Sun Zhang},
  title     = {Corbi: a new {R} package for biological network alignment and querying},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-2}},
  pages     = {S6},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S2-S6},
  doi       = {10.1186/1752-0509-7-S2-S6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HuangWZ13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HusiSDMVOM13,
  author    = {Holger Husi and
               Maria Sanchez{-}Ni{\~{n}}o and
               Christian Delles and
               William Mullen and
               Antonia Vlahou and
               Alberto Ortiz and
               Harald Mischak},
  title     = {A combinatorial approach of Proteomics and Systems Biology in unravelling
               the mechanisms of acute kidney injury {(AKI):} involvement of {NMDA}
               receptor {GRIN1} in murine {AKI}},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {110},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-110},
  doi       = {10.1186/1752-0509-7-110},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HusiSDMVOM13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/IberG13,
  author    = {Dagmar Iber and
               Christian Geyter},
  title     = {Computational modelling of bovine ovarian follicle development},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {60},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-60},
  doi       = {10.1186/1752-0509-7-60},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/IberG13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ImamND13,
  author    = {Saheed Imam and
               Daniel R. Noguera and
               Timothy J. Donohue},
  title     = {Global insights into energetic and metabolic networks in Rhodobacter
               sphaeroides},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {89},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-89},
  doi       = {10.1186/1752-0509-7-89},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ImamND13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/IorioSB13,
  author    = {Francesco Iorio and
               Julio Saez{-}Rodriguez and
               Diego di Bernardo},
  title     = {Network based elucidation of drug response: from modulators to targets},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {139},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-139},
  doi       = {10.1186/1752-0509-7-139},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/IorioSB13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/IwataMTKGY13,
  author    = {Hiroaki Iwata and
               Sayaka Mizutani and
               Yasuo Tabei and
               Masaaki Kotera and
               Susumu Goto and
               Yoshihiro Yamanishi},
  title     = {Inferring protein domains associated with drug side effects based
               on drug-target interaction network},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-6}},
  pages     = {S18},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S6-S18},
  doi       = {10.1186/1752-0509-7-S6-S18},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/IwataMTKGY13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JinZ13,
  author    = {Suoqin Jin and
               Xiufen Zou},
  title     = {Construction of the influenza {A} virus infection-induced cell-specific
               inflammatory regulatory network based on mutual information and optimization},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {105},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-105},
  doi       = {10.1186/1752-0509-7-105},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JinZ13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JohnD13,
  author    = {Peter C. St John and
               Francis J. Doyle},
  title     = {Estimating confidence intervals in predicted responses for oscillatory
               biological models},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {71},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-71},
  doi       = {10.1186/1752-0509-7-71},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JohnD13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JooPF13,
  author    = {Jaewook Joo and
               Steven J. Plimpton and
               Jean{-}Loup Faulon},
  title     = {Statistical ensemble analysis for simulating extrinsic noise-driven
               response in NF-{\(\kappa\)}},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {45},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-45},
  doi       = {10.1186/1752-0509-7-45},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JooPF13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JordaSCPHGFAW13,
  author    = {Joel Jord{\`{a}} and
               Camilo Suarez and
               Marc Carnicer and
               Angela ten Pierick and
               Joseph J. Heijnen and
               Walter M. van Gulik and
               Pau Ferrer and
               Joan Albiol and
               Aljoscha Wahl},
  title     = {Glucose-methanol co-utilization in Pichia pastoris studied by metabolomics
               and instationary \({}^{\mbox{13}}\)C flux analysis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {17},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-17},
  doi       = {10.1186/1752-0509-7-17},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JordaSCPHGFAW13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KahramanogullariL13,
  author    = {Ozan Kahramanogullari and
               James F. Lynch},
  title     = {Stochastic flux analysis of chemical reaction networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {133},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-133},
  doi       = {10.1186/1752-0509-7-133},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KahramanogullariL13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KellerDTFZARNHPZD13,
  author    = {Roland Keller and
               Alexander D{\"{o}}rr and
               Akito Tabira and
               Akira Funahashi and
               Michael J. Ziller and
               Richard R. Adams and
               Nicolas Rodriguez and
               Nicolas Le Nov{\`{e}}re and
               Noriko Hiroi and
               Hannes Planatscher and
               Andreas Zell and
               Andreas Dr{\"{a}}ger},
  title     = {The systems biology simulation core algorithm},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {55},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-55},
  doi       = {10.1186/1752-0509-7-55},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KellerDTFZARNHPZD13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KimHZ13,
  author    = {Soo{-}Jin Kim and
               JungWoo Ha and
               Byoung{-}Tak Zhang},
  title     = {Constructing higher-order miRNA-mRNA interaction networks in prostate
               cancer via hypergraph-based learning},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {47},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-47},
  doi       = {10.1186/1752-0509-7-47},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KimHZ13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KimSJLK13,
  author    = {Dokyoon Kim and
               Hyunjung Shin and
               Je{-}Gun Joung and
               Su{-}Yeon Lee and
               Ju Han Kim},
  title     = {Intra-relation reconstruction from inter-relation: miRNA to gene expression},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-3}},
  pages     = {S8},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S3-S8},
  doi       = {10.1186/1752-0509-7-S3-S8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KimSJLK13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KlapaTTTM13,
  author    = {Maria I. Klapa and
               Kalliopi Tsafou and
               Evangelos Theodoridis and
               Athanasios K. Tsakalidis and
               Nicholas K. Moschonas},
  title     = {Reconstruction of the experimentally supported human protein interactome:
               what can we learn?},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {96},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-96},
  doi       = {10.1186/1752-0509-7-96},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KlapaTTTM13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KnupferBDN13,
  author    = {Christian Kn{\"{u}}pfer and
               Clemens Beckstein and
               Peter Dittrich and
               Nicolas Le Nov{\`{e}}re},
  title     = {Structure, function, and behaviour of computational models in systems
               biology},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {43},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-43},
  doi       = {10.1186/1752-0509-7-43},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KnupferBDN13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KoteraTYMTKG13,
  author    = {Masaaki Kotera and
               Yasuo Tabei and
               Yoshihiro Yamanishi and
               Yuki Moriya and
               Toshiaki Tokimatsu and
               Minoru Kanehisa and
               Susumu Goto},
  title     = {{KCF-S:} {KEGG} Chemical Function and Substructure for improved interpretability
               and prediction in chemical bioinformatics},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-6}},
  pages     = {S2},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S6-S2},
  doi       = {10.1186/1752-0509-7-S6-S2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KoteraTYMTKG13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KotzeASADWG13,
  author    = {Helen L. Kotze and
               Emily G. Armitage and
               Kieran J. Sharkey and
               James William Allwood and
               Warwick B. Dunn and
               Kaye J. Williams and
               Royston Goodacre},
  title     = {A novel untargeted metabolomics correlation-based network analysis
               incorporating human metabolic reconstructions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {107},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-107},
  doi       = {10.1186/1752-0509-7-107},
  timestamp = {Sat, 05 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KotzeASADWG13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KrengelHTAJ13,
  author    = {Annette Krengel and
               Jan Hauth and
               Marja{-}Riitta Taskinen and
               Martin Adiels and
               Mats Jirstrand},
  title     = {A continuous-time adaptive particle filter for estimations under measurement
               time uncertainties with an application to a plasma-leucine mixed effects
               model},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {8},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-8},
  doi       = {10.1186/1752-0509-7-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KrengelHTAJ13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KrinnerRLS13,
  author    = {Axel Krinner and
               Ingo Roeder and
               Markus Loeffler and
               Markus Scholz},
  title     = {Merging concepts - coupling an agent-based model of hematopoietic
               stem cells with an {ODE} model of granulopoiesis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {117},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-117},
  doi       = {10.1186/1752-0509-7-117},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KrinnerRLS13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KumarBR13,
  author    = {Gaurav Kumar and
               Edmond J. Breen and
               Shoba Ranganathan},
  title     = {Identification of ovarian cancer associated genes using an integrated
               approach in a Boolean framework},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {12},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-12},
  doi       = {10.1186/1752-0509-7-12},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KumarBR13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KuoTT13,
  author    = {Tien{-}Chueh Kuo and
               Tze{-}Feng Tian and
               Yufeng Jane Tseng},
  title     = {3Omics: a web-based systems biology tool for analysis, integration
               and visualization of human transcriptomic, proteomic and metabolomic
               data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {64},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-64},
  doi       = {10.1186/1752-0509-7-64},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KuoTT13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KupersteinCPVCBZ13,
  author    = {Inna Kuperstein and
               David P. A. Cohen and
               Stuart Pook and
               Eric Viara and
               Laurence Calzone and
               Emmanuel Barillot and
               Andrei Yu. Zinovyev},
  title     = {NaviCell: a web-based environment for navigation, curation and maintenance
               of large molecular interaction maps},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {100},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-100},
  doi       = {10.1186/1752-0509-7-100},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KupersteinCPVCBZ13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/KutumovaZSK13,
  author    = {Elena Kutumova and
               Andrei Yu. Zinovyev and
               Ruslan N. Sharipov and
               Fedor A. Kolpakov},
  title     = {Model composition through model reduction: a combined model of {CD95}
               and NF-{\(\kappa\)}},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {13},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-13},
  doi       = {10.1186/1752-0509-7-13},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/KutumovaZSK13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LasherRM13,
  author    = {Christopher D. Lasher and
               Padmavathy Rajagopalan and
               T. M. Murali},
  title     = {Summarizing cellular responses as biological process networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {68},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-68},
  doi       = {10.1186/1752-0509-7-68},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LasherRM13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LawlerHBC13,
  author    = {Katherine Lawler and
               Kim E. Hammond{-}Kosack and
               Alvis Brazma and
               Richard M. R. Coulson},
  title     = {Genomic clustering and co-regulation of transcriptional networks in
               the pathogenic fungus Fusarium graminearum},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {52},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-52},
  doi       = {10.1186/1752-0509-7-52},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LawlerHBC13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LeeHLCCYHLXC13,
  author    = {Yi{-}Ying Lee and
               Chih{-}Yuan Hsu and
               Ling{-}Jiun Lin and
               Chih{-}Chun Chang and
               Hsiao{-}Chun Cheng and
               Tsung{-}Hsien Yeh and
               Rei{-}Hsing Hu and
               Che Lin and
               Zhen Xie and
               Bor{-}Sen Chen},
  title     = {Systematic design methodology for robust genetic transistors based
               on {I/O} specifications via promoter-RBS libraries},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {109},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-109},
  doi       = {10.1186/1752-0509-7-109},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LeeHLCCYHLXC13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LeePK13,
  author    = {Minho Lee and
               Keunwan Park and
               Dongsup Kim},
  title     = {Interaction network among functional drug groups},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-3}},
  pages     = {S4},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S3-S4},
  doi       = {10.1186/1752-0509-7-S3-S4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LeePK13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LeonMP13,
  author    = {Miguel Ponce de Leon and
               Francisco Montero and
               Juli Peret{\'{o}}},
  title     = {Solving gap metabolites and blocked reactions in genome-scale models:
               application to the metabolic network of Blattabacterium cuenoti},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {114},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-114},
  doi       = {10.1186/1752-0509-7-114},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LeonMP13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiHZLW13,
  author    = {Pengping Li and
               Xu Hua and
               Zhen Zhang and
               Jie Li and
               Jin Wang},
  title     = {Characterization of regulatory features of housekeeping and tissue-specific
               regulators within tissue regulatory networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {112},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-112},
  doi       = {10.1186/1752-0509-7-112},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiHZLW13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiJQCV13,
  author    = {Limin Li and
               Hao Jiang and
               Yushan Qiu and
               Wai{-}Ki Ching and
               Vassilios S. Vassiliadis},
  title     = {Discovery of metabolite biomarkers: flux analysis and reaction-reaction
               network approach},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-2}},
  pages     = {S13},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S2-S13},
  doi       = {10.1186/1752-0509-7-S2-S13},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiJQCV13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiLCW13,
  author    = {Jingyao Li and
               Dongdong Lin and
               Hongbao Cao and
               Yu{-}Ping Wang},
  title     = {An improved sparse representation model with structural information
               for Multicolour Fluorescence In-Situ Hybridization {(M-FISH)} image
               classification},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-4}},
  pages     = {S5},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S4-S5},
  doi       = {10.1186/1752-0509-7-S4-S5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiLCW13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiLZXLZSQZCX13,
  author    = {Ke{-}ning Li and
               Zi{-}hui Li and
               Ning Zhao and
               Yaoqun Xu and
               Yongjing Liu and
               Yuanshuai Zhou and
               Desi Shang and
               Fujun Qiu and
               Rui Zhang and
               Zhi{-}qiang Chang and
               Yan Xu},
  title     = {Functional analysis of microRNA and transcription factor synergistic
               regulatory network based on identifying regulatory motifs in non-small
               cell lung cancer},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {122},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-122},
  doi       = {10.1186/1752-0509-7-122},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiLZXLZSQZCX13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiN13,
  author    = {Yifeng Li and
               Alioune Ngom},
  title     = {Sparse representation approaches for the classification of high-dimensional
               biological data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-4}},
  pages     = {S6},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S4-S6},
  doi       = {10.1186/1752-0509-7-S4-S6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiN13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiTSYXBMZW13,
  author    = {Fuhai Li and
               Hua Tan and
               Jaykrishna Singh and
               Jian Yang and
               Xiaofeng Xia and
               Jiguang Bao and
               Jinwen Ma and
               Ming Zhan and
               Stephen T. C. Wong},
  title     = {A 3D multiscale model of cancer stem cell in tumor development},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-2}},
  pages     = {S12},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S2-S12},
  doi       = {10.1186/1752-0509-7-S2-S12},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiTSYXBMZW13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiV13,
  author    = {Pu Li and
               Quoc Dong Vu},
  title     = {Identification of parameter correlations for parameter estimation
               in dynamic biological models},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {91},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-91},
  doi       = {10.1186/1752-0509-7-91},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiV13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiangZSGZ13,
  author    = {Shide Liang and
               Dandan Zheng and
               Daron M. Standley and
               Huarong Guo and
               Chi Zhang},
  title     = {A novel function prediction approach using protein overlap networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {61},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-61},
  doi       = {10.1186/1752-0509-7-61},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiangZSGZ13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiaoC13,
  author    = {Vance Chiang{-}Chi Liao and
               Ming{-}Syan Chen},
  title     = {Efficient mining gapped sequential patterns for motifs in biological
               sequences},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-4}},
  pages     = {S7},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S4-S7},
  doi       = {10.1186/1752-0509-7-S4-S7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiaoC13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiebalMMLW13,
  author    = {Ulf W. Liebal and
               Thomas Millat and
               Jon Marles{-}Wright and
               Richard J. Lewis and
               Olaf Wolkenhauer},
  title     = {Simulations of stressosome activation emphasize allosteric interactions
               between RsbR and RsbT},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {3},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-3},
  doi       = {10.1186/1752-0509-7-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiebalMMLW13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuDCN13,
  author    = {Yuanhua Liu and
               Valentina Devescovi and
               Suning Chen and
               Christine Nardini},
  title     = {Multilevel omic data integration in cancer cell lines: advanced annotation
               and emergent properties},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {14},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-14},
  doi       = {10.1186/1752-0509-7-14},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuDCN13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuYW13,
  author    = {Juan Liu and
               Xinghuo Ye and
               Fang{-}Xiang Wu},
  title     = {Characterizing dynamic regulatory programs in mouse lung development
               and their potential association with tumourigenesis via miRNA-TF-mRNA
               circuits},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-2}},
  pages     = {S11},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S2-S11},
  doi       = {10.1186/1752-0509-7-S2-S11},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuYW13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LiuZSY13,
  author    = {Qi Liu and
               Shilin Zhao and
               Pei{-}Fang Su and
               Shyr Yu},
  title     = {Gene and isoform expression signatures associated with tumor stage
               in kidney renal clear cell carcinoma},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-5}},
  pages     = {S7},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S5-S7},
  doi       = {10.1186/1752-0509-7-S5-S7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LiuZSY13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LopezPN13,
  author    = {Yosvany L{\'{o}}pez and
               Ashwini Patil and
               Kenta Nakai},
  title     = {Identification of novel motif patterns to decipher the promoter architecture
               of co-expressed genes in Arabidopsis thaliana},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-3}},
  pages     = {S10},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S3-S10},
  doi       = {10.1186/1752-0509-7-S3-S10},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LopezPN13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LopezYATTHVW13,
  author    = {Luis D. Lopez and
               Jingyi Yu and
               Cecilia N. Arighi and
               Catalina O. Tudor and
               Manabu Torii and
               Hongzhan Huang and
               K. Vijay{-}Shanker and
               Cathy H. Wu},
  title     = {A framework for biomedical figure segmentation towards image-based
               document retrieval},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-4}},
  pages     = {S8},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S4-S8},
  doi       = {10.1186/1752-0509-7-S4-S8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LopezYATTHVW13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LouhimoLHLMRMBLNH13,
  author    = {Riku Louhimo and
               Marko Laakso and
               Tuomas Heikkinen and
               Susanna Laitinen and
               Pekka Manninen and
               Vladimir Rogojin and
               Minna Miettinen and
               Carl Blomqvist and
               Jianjun Liu and
               Heli Nevanlinna and
               Sampsa Hautaniemi},
  title     = {Identification of genetic markers with synergistic survival effect
               in cancer},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-1}},
  pages     = {S2},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S1-S2},
  doi       = {10.1186/1752-0509-7-S1-S2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/LouhimoLHLMRMBLNH13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MaCFHC13,
  author    = {Chifeng Ma and
               Hung{-}I Harry Chen and
               Mario Flores and
               Yufei Huang and
               Yidong Chen},
  title     = {BRCA-Monet: a breast cancer specific drug treatment mode-of-action
               network for treatment effective prediction using large scale microarray
               database},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-5}},
  pages     = {S5},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S5-S5},
  doi       = {10.1186/1752-0509-7-S5-S5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MaCFHC13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MadarDBZPA13,
  author    = {Daniel Madar and
               Erez Dekel and
               Anat Bren and
               Anat Zimmer and
               Ziv Porat and
               Uri Alon},
  title     = {Promoter activity dynamics in the lag phase of Escherichia coli},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {136},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-136},
  doi       = {10.1186/1752-0509-7-136},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MadarDBZPA13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MarchisioCWS13,
  author    = {Mario A. Marchisio and
               Moreno Colaiacovo and
               Ellis Whitehead and
               J{\"{o}}rg Stelling},
  title     = {Modular, rule-based modeling for the design of eukaryotic synthetic
               gene circuits},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {42},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-42},
  doi       = {10.1186/1752-0509-7-42},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MarchisioCWS13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Martinez-PasamarAMMMGV13,
  author    = {Sara Martinez{-}Pasamar and
               Elena Abad and
               Beatriz Moreno and
               Nieves V{\'{e}}lez de Mendiz{\'{a}}bal and
               Ivan Martinez{-}Forero and
               Jordi Garc{\'{\i}}a{-}Ojalvo and
               Pablo Villoslada},
  title     = {Dynamic cross-regulation of antigen-specific effector and regulatory
               {T} cell subpopulations and microglia in brain autoimmunity},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {34},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-34},
  doi       = {10.1186/1752-0509-7-34},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Martinez-PasamarAMMMGV13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MassucciDGMCMM13,
  author    = {Francesco Alessandro Massucci and
               Mauro DiNuzzo and
               Federico Giove and
               Bruno Maraviglia and
               Isaac P{\'{e}}rez Castillo and
               Enzo Marinari and
               Andrea De Martino},
  title     = {Energy metabolism and glutamate-glutamine cycle in the brain: a stoichiometric
               modeling perspective},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {103},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-103},
  doi       = {10.1186/1752-0509-7-103},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MassucciDGMCMM13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MatsuokaMKENHGSLWWFKK13,
  author    = {Yukiko Matsuoka and
               Hiromi Matsumae and
               Manami Katoh and
               Amie J. Eisfeld and
               Gabriele Neumann and
               Takeshi Hase and
               Samik Ghosh and
               Jason E. Shoemaker and
               Tiago J. S. Lopes and
               Tokiko Watanabe and
               Shinji Watanabe and
               Satoshi Fukuyama and
               Hiroaki Kitano and
               Yoshihiro Kawaoka},
  title     = {A comprehensive map of the influenza {A} virus replication cycle},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {97},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-97},
  doi       = {10.1186/1752-0509-7-97},
  timestamp = {Wed, 01 Jul 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MatsuokaMKENHGSLWWFKK13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MayburdB13,
  author    = {Anatoly L. Mayburd and
               Ancha V. Baranova},
  title     = {Knowledge-based compact disease models identify new molecular players
               contributing to early-stage Alzheimer's disease},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {121},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-121},
  doi       = {10.1186/1752-0509-7-121},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MayburdB13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MimoriNKTOSYN13,
  author    = {Takahiro Mimori and
               Naoki Nariai and
               Kaname Kojima and
               Mamoru Takahashi and
               Akira Ono and
               Yukuto Sato and
               Yumi Yamaguchi{-}Kabata and
               Masao Nagasaki},
  title     = {iSVP: an integrated structural variant calling pipeline from high-throughput
               sequencing data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-6}},
  pages     = {S8},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S6-S8},
  doi       = {10.1186/1752-0509-7-S6-S8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MimoriNKTOSYN13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MisraS13,
  author    = {Ashish Misra and
               Ganesh Sriram},
  title     = {Network component analysis provides quantitative insights on an Arabidopsis
               transcription factor-gene regulatory network},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {126},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-126},
  doi       = {10.1186/1752-0509-7-126},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MisraS13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MohammadiSG13,
  author    = {Shahin Mohammadi and
               Shankar Subramaniam and
               Ananth Grama},
  title     = {Inferring the effective TOR-dependent network: a computational study
               in yeast},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {84},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-84},
  doi       = {10.1186/1752-0509-7-84},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MohammadiSG13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MuellerBPM13,
  author    = {Thomas J. Mueller and
               Bertram M. Berla and
               Himadri B. Pakrasi and
               Costas D. Maranas},
  title     = {Rapid construction of metabolic models for a family of Cyanobacteria
               using a multiple source annotation workflow},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {142},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-142},
  doi       = {10.1186/1752-0509-7-142},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/MuellerBPM13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/NakatsuiAK13,
  author    = {Masahiko Nakatsui and
               Michihiro Araki and
               Akihiko Kondo},
  title     = {An approach for dynamical network reconstruction of simple network
               motifs},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-6}},
  pages     = {S4},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S6-S4},
  doi       = {10.1186/1752-0509-7-S6-S4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/NakatsuiAK13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/NieY13,
  author    = {YaLing Nie and
               Jingkai Yu},
  title     = {Mining breast cancer genes with a network based noise-tolerant approach},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {49},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-49},
  doi       = {10.1186/1752-0509-7-49},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/NieY13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/NilufarMLP13,
  author    = {Sharmin Nilufar and
               Anne Morrow and
               Jonathan Lee and
               Theodore J. Perkins},
  title     = {FiloDetect: automatic detection of filopodia from fluorescence microscopy
               images},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {66},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-66},
  doi       = {10.1186/1752-0509-7-66},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/NilufarMLP13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/NishioOIYUMT13,
  author    = {Yousuke Nishio and
               Soichi Ogishima and
               Masao Ichikawa and
               Yohei Yamada and
               Yoshihiro Usuda and
               Tadashi Masuda and
               Hiroshi Tanaka},
  title     = {Analysis of l-glutamic acid fermentation by using a dynamic metabolic
               simulation model of Escherichia coli},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {92},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-92},
  doi       = {10.1186/1752-0509-7-92},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/NishioOIYUMT13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/NohSSHKJCKC13,
  author    = {Kyungchul Noh and
               Kyung Soon Shin and
               Dongkwan Shin and
               Jae Yeon Hwang and
               June Sic Kim and
               Joon Hwan Jang and
               Chun Kee Chung and
               Jun Soo Kwon and
               Kwang{-}Hyun Cho},
  title     = {Impaired coupling of local and global functional feedbacks underlies
               abnormal synchronization and negative symptoms of schizophrenia},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {30},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-30},
  doi       = {10.1186/1752-0509-7-30},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/NohSSHKJCKC13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/OguzLCWBT13,
  author    = {Cihan Oguz and
               Teeraphan Laomettachit and
               Katherine C. Chen and
               Layne T. Watson and
               William T. Baumann and
               John J. Tyson},
  title     = {Optimization and model reduction in the high dimensional parameter
               space of a budding yeast cell cycle model},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {53},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-53},
  doi       = {10.1186/1752-0509-7-53},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/OguzLCWBT13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/OliveiraBBFIZ13,
  author    = {Juliana Oliveira and
               Anderson de Brito and
               Carla Braconi and
               Caio de Melo Freire and
               Atila Iamarino and
               Paolo de Andrade Zanotto},
  title     = {Modularity and evolutionary constraints in a baculovirus gene regulatory
               network},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {87},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-87},
  doi       = {10.1186/1752-0509-7-87},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/OliveiraBBFIZ13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/OoiM13,
  author    = {Hsu Kiang Ooi and
               Lan Ma},
  title     = {Modeling heterogeneous responsiveness of intrinsic apoptosis pathway},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {65},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-65},
  doi       = {10.1186/1752-0509-7-65},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/OoiM13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/OsterlundNBN13,
  author    = {Tobias {\"{O}}sterlund and
               Intawat Nookaew and
               Sergio Bordel and
               Jens Nielsen},
  title     = {Mapping condition-dependent regulation of metabolism in yeast through
               genome-scale modeling},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {36},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-36},
  doi       = {10.1186/1752-0509-7-36},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/OsterlundNBN13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PalssonHBZJOSPV13,
  author    = {Sirus Palsson and
               Timothy P. Hickling and
               Erica L. Bradshaw{-}Pierce and
               Michael Zager and
               Karin Jooss and
               Peter O'Brien and
               Mary E. Spilker and
               Bernhard {\O}. Palsson and
               Paolo Vicini},
  title     = {The development of a fully-integrated immune response model {(FIRM)}
               simulator of the immune response through integration of multiple subset
               models},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {95},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-95},
  doi       = {10.1186/1752-0509-7-95},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PalssonHBZJOSPV13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PertsovskayaADGV13,
  author    = {Inna Pertsovskaya and
               Elena Abad and
               N{\'{u}}ria Domedel{-}Puig and
               Jordi Garc{\'{\i}}a{-}Ojalvo and
               Pablo Villoslada},
  title     = {Transient oscillatory dynamics of interferon beta signaling in macrophages},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {59},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-59},
  doi       = {10.1186/1752-0509-7-59},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PertsovskayaADGV13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PeyTCP13,
  author    = {Jon Pey and
               Luis Tobalina and
               Joaqu{\'{\i}}n Prada J. de Cisneros and
               Francisco J. Planes},
  title     = {A network-based approach for predicting key enzymes explaining metabolite
               abundance alterations in a disease phenotype},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {62},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-62},
  doi       = {10.1186/1752-0509-7-62},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PeyTCP13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PeyVRBP13,
  author    = {Jon Pey and
               Kaspar Valgepea and
               Angel Rubio and
               John E. Beasley and
               Francisco J. Planes},
  title     = {Integrating gene and protein expression data with genome-scale metabolic
               networks to infer functional pathways},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {134},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-134},
  doi       = {10.1186/1752-0509-7-134},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PeyVRBP13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PinnaHFFK13,
  author    = {Andrea Pinna and
               Sandra Heise and
               Robert J. Flassig and
               Alberto de la Fuente and
               Steffen Klamt},
  title     = {Reconstruction of large-scale regulatory networks based on perturbation
               graphs and transitive reduction: improved methods and their evaluation},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {73},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-73},
  doi       = {10.1186/1752-0509-7-73},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PinnaHFFK13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PodsiadloWPRW13,
  author    = {Agnieszka Podsiadlo and
               Mariusz Wrzesien and
               Wieslaw Paja and
               Witold R. Rudnicki and
               Bartek Wilczynski},
  title     = {Active enhancer positions can be accurately predicted from chromatin
               marks and collective sequence motif data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-6}},
  pages     = {S16},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S6-S16},
  doi       = {10.1186/1752-0509-7-S6-S16},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PodsiadloWPRW13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PokhilkoMM13,
  author    = {Alexandra V. Pokhilko and
               Paloma Mas and
               Andrew J. Millar},
  title     = {Modelling the widespread effects of {TOC1} signalling on the plant
               circadian clock and its outputs},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {23},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-23},
  doi       = {10.1186/1752-0509-7-23},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PokhilkoMM13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PradhanDP13,
  author    = {Meeta Pradhan and
               Akshay Desai and
               Mathew J. Palakal},
  title     = {Systems biology approach to stage-wise characterization of epigenetic
               genes in lung adenocarcinoma},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {141},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-141},
  doi       = {10.1186/1752-0509-7-141},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/PradhanDP13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/QiWSHSXXC13,
  author    = {Ran Qi and
               Dengyuan Wu and
               Li Sheng and
               Donald Henson and
               Arnold M. Schwartz and
               Eric Xu and
               Kai Xing and
               Dechang Chen},
  title     = {On an ensemble algorithm for clustering cancer patient data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-4}},
  pages     = {S9},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S4-S9},
  doi       = {10.1186/1752-0509-7-S4-S9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/QiWSHSXXC13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/QureshiS13,
  author    = {Rehman Qureshi and
               Ahmet Sacan},
  title     = {Weighted set enrichment of gene expression data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-4}},
  pages     = {S10},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S4-S10},
  doi       = {10.1186/1752-0509-7-S4-S10},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/QureshiS13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RanLFLXLSCJLL13,
  author    = {Jihua Ran and
               Hui Li and
               Jianfeng Fu and
               Ling Liu and
               Yanchao Xing and
               Xiumei Li and
               Hongming Shen and
               Yan Chen and
               Xiaofang Jiang and
               Yan Li and
               Huiwu Li},
  title     = {Construction and analysis of the protein-protein interaction network
               related to essential hypertension},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {32},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-32},
  doi       = {10.1186/1752-0509-7-32},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RanLFLXLSCJLL13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RanolaLLH13,
  author    = {John M. O. Ranola and
               Peter Langfelder and
               Kenneth Lange and
               Steve Horvath},
  title     = {Cluster and propensity based approximation of a network},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {21},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-21},
  doi       = {10.1186/1752-0509-7-21},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RanolaLLH13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RasheedRB13,
  author    = {Zeehasham Rasheed and
               Huzefa Rangwala and
               Daniel Barbar{\'{a}}},
  title     = {16S rRNA metagenome clustering and diversity estimation using locality
               sensitive hashing},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-4}},
  pages     = {S11},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S4-S11},
  doi       = {10.1186/1752-0509-7-S4-S11},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RasheedRB13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RauJN13,
  author    = {Andrea Rau and
               Florence Jaffr{\'{e}}zic and
               Gr{\'{e}}gory Nuel},
  title     = {Joint estimation of causal effects from observational and intervention
               gene expression data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {111},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-111},
  doi       = {10.1186/1752-0509-7-111},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RauJN13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RaySY13,
  author    = {Debjit Ray and
               Yongchun Su and
               Ping Ye},
  title     = {Dynamic modeling of yeast meiotic initiation},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {37},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-37},
  doi       = {10.1186/1752-0509-7-37},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RaySY13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RenWLW13,
  author    = {Jun Ren and
               Jianxin Wang and
               Min Li and
               Lusheng Wang},
  title     = {Identifying protein complexes based on density and modularity in protein-protein
               interaction network},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-4}},
  pages     = {S12},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S4-S12},
  doi       = {10.1186/1752-0509-7-S4-S12},
  timestamp = {Fri, 21 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RenWLW13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/RiemerRS13,
  author    = {S. Alexander Riemer and
               Rene Rex and
               Dietmar Schomburg},
  title     = {A metabolite-centric view on flux distributions in genome-scale metabolic
               models},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {33},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-33},
  doi       = {10.1186/1752-0509-7-33},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/RiemerRS13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Rodriguez-FernandezRKB13,
  author    = {Maria Rodriguez{-}Fernandez and
               Markus Rehberg and
               Andreas Kremling and
               Julio R. Banga},
  title     = {Simultaneous model discrimination and parameter estimation in dynamic
               models of cellular systems},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {76},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-76},
  doi       = {10.1186/1752-0509-7-76},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Rodriguez-FernandezRKB13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SaithongRKCSNSMC13,
  author    = {Treenut Saithong and
               Oratai Rongsirikul and
               Saowalak Kalapanulak and
               Porntip Chiewchankaset and
               Wanatsanan Siriwat and
               Supatcharee Netrphan and
               Malinee Suksangpanomrung and
               Asawin Meechai and
               Supapon Cheevadhanarak},
  title     = {Starch biosynthesis in cassava: a genome-based pathway reconstruction
               and its exploitation in data integration},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {75},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-75},
  doi       = {10.1186/1752-0509-7-75},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SaithongRKCSNSMC13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SalernoCMBA13,
  author    = {Luca Salerno and
               Carlo Cosentino and
               Alessio Merola and
               Declan G. Bates and
               Francesco Amato},
  title     = {Validation of a model of the {GAL} regulatory system via robustness
               analysis of its bistability characteristics},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {39},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-39},
  doi       = {10.1186/1752-0509-7-39},
  timestamp = {Fri, 26 Jun 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SalernoCMBA13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Sands13,
  author    = {Tim Sands},
  title     = {Annual acknowledgement of reviewers},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {35},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-35},
  doi       = {10.1186/1752-0509-7-35},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Sands13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SantraKK13,
  author    = {Tapesh Santra and
               Walter Kolch and
               Boris N. Kholodenko},
  title     = {Integrating Bayesian variable selection with Modular Response Analysis
               to infer biochemical network topology},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {57},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-57},
  doi       = {10.1186/1752-0509-7-57},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SantraKK13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SchaadtSHH13,
  author    = {Nadine S. Schaadt and
               Anke Steinbach and
               Rolf W. Hartmann and
               Volkhard Helms},
  title     = {Rule-based regulatory and metabolic model for Quorum sensing in P.
               aeruginosa},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {81},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-81},
  doi       = {10.1186/1752-0509-7-81},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SchaadtSHH13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SchittlerAB13,
  author    = {Daniella Schittler and
               Frank Allg{\"{o}}wer and
               Rob J. De Boer},
  title     = {A new model to simulate and analyze proliferating cell populations
               in BrdU labeling experiments},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-1}},
  pages     = {S4},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S1-S4},
  doi       = {10.1186/1752-0509-7-S1-S4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SchittlerAB13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SchonbachSTR13,
  author    = {Christian Sch{\"{o}}nbach and
               Bairong Shen and
               Tin Wee Tan and
               Shoba Ranganathan},
  title     = {InCoB2013 introduces Systems Biology as a major conference theme},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-3}},
  pages     = {S1},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S3-S1},
  doi       = {10.1186/1752-0509-7-S3-S1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SchonbachSTR13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SenVR13,
  author    = {Partho Sen and
               Henri J. Vial and
               Ovidiu Radulescu},
  title     = {Kinetic modelling of phospholipid synthesis in Plasmodium knowlesi
               unravels crucial steps and relative importance of multiple pathways},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {123},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-123},
  doi       = {10.1186/1752-0509-7-123},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SenVR13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ShangGXCMOG13,
  author    = {Lei Shang and
               David P. Gardner and
               Weijia Xu and
               Jamie J. Cannone and
               Daniel P. Miranker and
               Stuart Ozer and
               Robin Ray Gutell},
  title     = {Two accurate sequence, structure, and phylogenetic template-based
               {RNA} alignment systems},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-4}},
  pages     = {S13},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S4-S13},
  doi       = {10.1186/1752-0509-7-S4-S13},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ShangGXCMOG13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ShiGCSHCX13,
  author    = {Xu Shi and
               Jinghua Gu and
               Xi Chen and
               Ayesha N. Shajahan and
               Leena Hilakivi{-}Clarke and
               Robert Clarke and
               Jianhua Xuan},
  title     = {mAPC-GibbsOS: an integrated approach for robust identification of
               gene regulatory networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-5}},
  pages     = {S4},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S5-S4},
  doi       = {10.1186/1752-0509-7-S5-S4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ShiGCSHCX13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ShiXZXLWZJGL13,
  author    = {Hongbo Shi and
               Juan Xu and
               Guangde Zhang and
               Liangde Xu and
               Chunquan Li and
               Li Wang and
               Zheng Zhao and
               Wei Jiang and
               Zheng Guo and
               Xia Li},
  title     = {Walking the interactome to identify human miRNA-disease associations
               through the functional link between miRNA targets and disease genes},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {101},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-101},
  doi       = {10.1186/1752-0509-7-101},
  timestamp = {Thu, 17 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ShiXZXLWZJGL13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ShinCSHS13,
  author    = {Yong{-}Jun Shin and
               Kai{-}Yuan Chen and
               Ali H. Sayed and
               Brandon Hencey and
               Xiling Shen},
  title     = {Post-translational regulation enables robust p53 regulation},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {83},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-83},
  doi       = {10.1186/1752-0509-7-83},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ShinCSHS13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SimchaYAG13,
  author    = {David M. Simcha and
               Laurent Younes and
               Martin J. Aryee and
               Donald Geman},
  title     = {Identification of direction in gene networks from expression and methylation},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {118},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-118},
  doi       = {10.1186/1752-0509-7-118},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SimchaYAG13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SlawekA13,
  author    = {Janusz Slawek and
               Tomasz Arodz},
  title     = {{ENNET:} inferring large gene regulatory networks from expression
               data using gradient boosting},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {106},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-106},
  doi       = {10.1186/1752-0509-7-106},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SlawekA13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SmithS13,
  author    = {Graham R. Smith and
               Daryl P. Shanley},
  title     = {Computational modelling of the regulation of Insulin signalling by
               oxidative stress},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {41},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-41},
  doi       = {10.1186/1752-0509-7-41},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SmithS13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SohnKLK13,
  author    = {Kyung{-}Ah Sohn and
               Dokyoon Kim and
               Jaehyun Lim and
               Ju Han Kim},
  title     = {Relative impact of multi-layered genomic data on gene expression phenotypes
               in serous ovarian tumors},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-6}},
  pages     = {S9},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S6-S9},
  doi       = {10.1186/1752-0509-7-S6-S9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SohnKLK13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SrivastavaHBPA13,
  author    = {Prashant K. Srivastava and
               Richard P. Hull and
               Jacques Behmoaras and
               Enrico Petretto and
               Timothy J. Aitman},
  title     = {JunD/AP1 regulatory network analysis during macrophage activation
               in a rat model of crescentic glomerulonephritis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {93},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-93},
  doi       = {10.1186/1752-0509-7-93},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/SrivastavaHBPA13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/StobbeSTRKM13,
  author    = {Miranda D. Stobbe and
               Morris A. Swertz and
               Ines Thiele and
               Trebor Rengaw and
               Antoine H. C. van Kampen and
               Perry D. Moerland},
  title     = {Consensus and conflict cards for metabolic pathway databases},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {50},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-50},
  doi       = {10.1186/1752-0509-7-50},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/StobbeSTRKM13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TabbaaNSHJ13,
  author    = {Omar P. Tabbaa and
               German Nudelman and
               Stuart C. Sealfon and
               Fernand Hayot and
               Ciriyam Jayaprakash},
  title     = {Noise propagation through extracellular signaling leads to fluctuations
               in gene expression},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {94},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-94},
  doi       = {10.1186/1752-0509-7-94},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TabbaaNSHJ13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TabeiY13,
  author    = {Yasuo Tabei and
               Yoshihiro Yamanishi},
  title     = {Scalable prediction of compound-protein interactions using minwise
               hashing},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-6}},
  pages     = {S3},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S6-S3},
  doi       = {10.1186/1752-0509-7-S6-S3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TabeiY13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TangYCLKS13,
  author    = {Yifei Tang and
               Wenying Yan and
               Jiajia Chen and
               Cheng Luo and
               Antti Kaipia and
               Bairong Shen},
  title     = {Identification of novel microRNA regulatory pathways associated with
               heterogeneous prostate cancer},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-3}},
  pages     = {S6},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S3-S6},
  doi       = {10.1186/1752-0509-7-S3-S6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TangYCLKS13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TchitchekETJGBTWFTLNMSWBKK13,
  author    = {Nicolas Tchitchek and
               Amie J. Eisfeld and
               Jennifer Tisoncik{-}Go and
               Laurence Josset and
               Lisa E. Gralinski and
               Christophe B{\'{e}}cavin and
               Susan C. Tilton and
               Bobbie{-}Jo M. Webb{-}Robertson and
               Martin T. Ferris and
               Allison L. Totura and
               Chengjun Li and
               Gabriele Neumann and
               Thomas O. Metz and
               Richard D. Smith and
               Katrina M. Waters and
               Ralph S. Baric and
               Yoshihiro Kawaoka and
               Michael G. Katze},
  title     = {Specific mutations in {H5N1} mainly impact the magnitude and velocity
               of the host response in mice},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {69},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-69},
  doi       = {10.1186/1752-0509-7-69},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TchitchekETJGBTWFTLNMSWBKK13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TessmerJCKC13,
  author    = {Oliver L. Tessmer and
               Yuhua Jiao and
               Jeffrey A. Cruz and
               David M. Kramer and
               Jin Chen},
  title     = {Functional approach to high-throughput plant growth analysis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-6}},
  pages     = {S17},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S6-S17},
  doi       = {10.1186/1752-0509-7-S6-S17},
  timestamp = {Fri, 18 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TessmerJCKC13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TianFMM13,
  author    = {Zhongyuan Tian and
               Adrien Faur{\'{e}} and
               Hirotada Mori and
               Hiroshi Matsuno},
  title     = {Identification of key regulators in glycogen utilization in E. coli
               based on the simulations from a hybrid functional Petri net model},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-6}},
  pages     = {S1},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S6-S1},
  doi       = {10.1186/1752-0509-7-S6-S1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TianFMM13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TorchalaCKB13,
  author    = {Mieczyslaw Torchala and
               Przemyslaw Chelminiak and
               Michal Kurzynski and
               Paul A. Bates},
  title     = {RaTrav: a tool for calculating mean first-passage times on biochemical
               networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {130},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-130},
  doi       = {10.1186/1752-0509-7-130},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TorchalaCKB13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TreloarSHMLMB13,
  author    = {Katrina K. Treloar and
               Matthew J. Simpson and
               Parvathi Haridas and
               Kerry J. Manton and
               David I. Leavesley and
               Donald L. S. McElwain and
               Ruth E. Baker},
  title     = {Multiple types of data are required to identify the mechanisms influencing
               the spatial expansion of melanoma cell colonies},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {137},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-137},
  doi       = {10.1186/1752-0509-7-137},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TreloarSHMLMB13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TrifonovPFR13,
  author    = {Vladimir Trifonov and
               Laura Pasqualucci and
               Riccardo Dalla Favera and
               Raul Rabadan},
  title     = {MutComFocal: an integrative approach to identifying recurrent and
               focal genomic alterations in tumor samples},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {25},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-25},
  doi       = {10.1186/1752-0509-7-25},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TrifonovPFR13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/TrifonovPTFR13,
  author    = {Vladimir Trifonov and
               Laura Pasqualucci and
               Enrico Tiacci and
               Brunangelo Falini and
               Raul Rabadan},
  title     = {{SAVI:} a statistical algorithm for variant frequency identification},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-2}},
  pages     = {S2},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S2-S2},
  doi       = {10.1186/1752-0509-7-S2-S2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/TrifonovPTFR13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/UdyavarHCZTLLCSSLFEEMQ13,
  author    = {Akshata R. Udyavar and
               Megan D. Hoeksema and
               Jonathan E. Clark and
               Yong Zou and
               Zuojian Tang and
               Zhiguo Li and
               Ming Li and
               Heidi Chen and
               Alexander R. Statnikov and
               Yu Shyr and
               Daniel C. Liebler and
               John K. Field and
               Rosana Eisenberg and
               Lourdes Estrada and
               Pierre P. Massion and
               Vito Quaranta},
  title     = {Co-expression network analysis identifies Spleen Tyrosine Kinase {(SYK)}
               as a candidate oncogenic driver in a subset of small-cell lung cancer},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-5}},
  pages     = {S1},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S5-S1},
  doi       = {10.1186/1752-0509-7-S5-S1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/UdyavarHCZTLLCSSLFEEMQ13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/VafaeeRBJ13,
  author    = {Fatemeh Vafaee and
               Daniela Rosu and
               Fiona Broackes{-}Carter and
               Igor Jurisica},
  title     = {Novel semantic similarity measure improves an integrative approach
               to predicting gene functional associations},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {22},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-22},
  doi       = {10.1186/1752-0509-7-22},
  timestamp = {Sat, 05 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/VafaeeRBJ13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Vazquez13,
  author    = {Alexei Vazquez},
  title     = {Optimization of personalized therapies for anticancer treatment},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {31},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-31},
  doi       = {10.1186/1752-0509-7-31},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Vazquez13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Vital-LopezWR13,
  author    = {Francisco G. Vital{-}Lopez and
               Anders Wallqvist and
               Jaques Reifman},
  title     = {Bridging the gap between gene expression and metabolic phenotype via
               kinetic models},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {63},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-63},
  doi       = {10.1186/1752-0509-7-63},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Vital-LopezWR13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/VogtCS13,
  author    = {Torsten Vogt and
               Tobias Czauderna and
               Falk Schreiber},
  title     = {Translation of {SBGN} maps: Process Description to Activity Flow},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {115},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-115},
  doi       = {10.1186/1752-0509-7-115},
  timestamp = {Sat, 05 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/VogtCS13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WangCWW13,
  author    = {Hsiuying Wang and
               Chia{-}Chun Chiu and
               Yi{-}Ching Wu and
               Wei{-}Sheng Wu},
  title     = {Shrinkage regression-based methods for microarray missing value imputation},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-6}},
  pages     = {S11},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S6-S11},
  doi       = {10.1186/1752-0509-7-S6-S11},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WangCWW13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WangLCHLCC13,
  author    = {Yu{-}Chao Wang and
               Che Lin and
               Ming{-}Ta Chuang and
               Wen{-}Ping Hsieh and
               Chung{-}Yu Lan and
               Yung{-}Jen Chuang and
               Bor{-}Sen Chen},
  title     = {Interspecies protein-protein interaction network construction for
               characterization of host-pathogen interactions: a Candida albicans-zebrafish
               interaction study},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {79},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-79},
  doi       = {10.1186/1752-0509-7-79},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WangLCHLCC13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WangPXLP13,
  author    = {Jianxin Wang and
               Xiaoqing Peng and
               Qianghua Xiao and
               Min Li and
               Yi Pan},
  title     = {An effective method for refining predicted protein complexes based
               on protein activity and the mechanism of protein complex formation},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {28},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-28},
  doi       = {10.1186/1752-0509-7-28},
  timestamp = {Fri, 21 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WangPXLP13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WangVHPW13,
  author    = {Qinghua Wang and
               Keerthi Venkataramanan and
               Hongzhan Huang and
               Eleftherios T. Papoutsakis and
               Cathy H. Wu},
  title     = {Transcription factors and genetic circuits orchestrating the complex,
               multilayered response of Clostridium acetobutylicum to butanol and
               butyrate stress},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {120},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-120},
  doi       = {10.1186/1752-0509-7-120},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WangVHPW13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WangXEFZ13,
  author    = {Vicky Wang and
               Li Xi and
               Ahmed Enayetallah and
               Eric Fauman and
               Daniel Ziemek},
  title     = {GeneTopics - interpretation of gene sets via literature-driven topic
               models},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-5}},
  pages     = {S10},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S5-S10},
  doi       = {10.1186/1752-0509-7-S5-S10},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WangXEFZ13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WangZC13,
  author    = {Yong Wang and
               Xiang{-}Sun Zhang and
               Luonan Chen},
  title     = {Computational systems biology in the big data era},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-2}},
  pages     = {S1},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S2-S1},
  doi       = {10.1186/1752-0509-7-S2-S1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WangZC13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WangZL13,
  author    = {Jing Wang and
               Dabing Zhang and
               Jing Li},
  title     = {{PREAL:} prediction of allergenic protein by maximum Relevance Minimum
               Redundancy (mRMR) feature selection},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-5}},
  pages     = {S9},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S5-S9},
  doi       = {10.1186/1752-0509-7-S5-S9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WangZL13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WeberB13,
  author    = {Marc Weber and
               Javier Buceta},
  title     = {Dynamics of the quorum sensing switch: stochastic and non-stationary
               effects},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {6},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-6},
  doi       = {10.1186/1752-0509-7-6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WeberB13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WeberHVGZD13,
  author    = {Michael Weber and
               Sebastian Henkel and
               Sebastian Vlaic and
               Reinhard Guthke and
               Everardus J. van Zoelen and
               Dominik Driesch},
  title     = {Inference of dynamical gene-regulatory networks based on time-resolved
               multi-stimuli multi-experiment data applying NetGenerator {V2.0}},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {1},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-1},
  doi       = {10.1186/1752-0509-7-1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WeberHVGZD13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WeberSKGZ13,
  author    = {Michael Weber and
               Ana M. Sotoca and
               Peter Kupfer and
               Reinhard Guthke and
               Everardus J. van Zoelen},
  title     = {Dynamic modelling of microRNA regulation during mesenchymal stem cell
               differentiation},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {124},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-124},
  doi       = {10.1186/1752-0509-7-124},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WeberSKGZ13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WiditaM13,
  author    = {Chasanah Kusumastuti Widita and
               Osamu Maruyama},
  title     = {PPSampler2: Predicting protein complexes more accurately and efficiently
               by sampling},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-6}},
  pages     = {S14},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S6-S14},
  doi       = {10.1186/1752-0509-7-S6-S14},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WiditaM13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Williams-DeVaneRHBHGE13,
  author    = {ClarLynda R. Williams{-}DeVane and
               David M. Reif and
               Elaine Cohen Hubal and
               Pierre R. Bushel and
               Edward E. Hudgens and
               Jane E. Gallagher and
               Stephen W. Edwards},
  title     = {Decision tree-based method for integrating gene expression, demographic,
               and clinical data to determine disease endotypes},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {119},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-119},
  doi       = {10.1186/1752-0509-7-119},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Williams-DeVaneRHBHGE13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WinklerF13,
  author    = {Jessica M. Winkler and
               Howard S. Fox},
  title     = {Transcriptome meta-analysis reveals a central role for sex steroids
               in the degeneration of hippocampal neurons in Alzheimer's disease},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {51},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-51},
  doi       = {10.1186/1752-0509-7-51},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WinklerF13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WinterbachMRWR13,
  author    = {Wynand Winterbach and
               Piet Van Mieghem and
               Marcel J. T. Reinders and
               Huijuan Wang and
               Dick de Ridder},
  title     = {Topology of molecular interaction networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {90},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-90},
  doi       = {10.1186/1752-0509-7-90},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WinterbachMRWR13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WintermuteLS13,
  author    = {Edwin H. Wintermute and
               Tami D. Lieberman and
               Pamela A. Silver},
  title     = {An objective function exploiting suboptimal solutions in metabolic
               networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {98},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-98},
  doi       = {10.1186/1752-0509-7-98},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WintermuteLS13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WrzodekBRDZ13,
  author    = {Clemens Wrzodek and
               Finja B{\"{u}}chel and
               Manuel Ruff and
               Andreas Dr{\"{a}}ger and
               Andreas Zell},
  title     = {Precise generation of systems biology models from {KEGG} pathways},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {15},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-15},
  doi       = {10.1186/1752-0509-7-15},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WrzodekBRDZ13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WuGAJ13,
  author    = {Chao Wu and
               Ranga Chandra Gudivada and
               Bruce J. Aronow and
               Anil G. Jegga},
  title     = {Computational drug repositioning through heterogeneous network clustering},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-5}},
  pages     = {S6},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S5-S6},
  doi       = {10.1186/1752-0509-7-S5-S6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WuGAJ13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WuSN13,
  author    = {Chengkun Wu and
               Jean{-}Marc Schwartz and
               Goran Nenadic},
  title     = {PathNER: a tool for systematic identification of biological pathway
               mentions in the literature},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-3}},
  pages     = {S2},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S3-S2},
  doi       = {10.1186/1752-0509-7-S3-S2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WuSN13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WuSZT13,
  author    = {Qianqian Wu and
               Kate Smith{-}Miles and
               Tianshou Zhou and
               Tianhai Tian},
  title     = {Stochastic modelling of biochemical systems of multi-step reactions
               using a simplified two-variable model},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-4}},
  pages     = {S14},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S4-S14},
  doi       = {10.1186/1752-0509-7-S4-S14},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/WuSZT13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/XiangQQH13,
  author    = {Zuoshuang Xiang and
               Tingting Qin and
               Zhaohui S. Qin and
               Yongqun He},
  title     = {A genome-wide MeSH-based literature mining system predicts implicit
               gene-to-gene relationships and networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-3}},
  pages     = {S9},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S3-S9},
  doi       = {10.1186/1752-0509-7-S3-S9},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/XiangQQH13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/XuYTSWLL13,
  author    = {Huayong Xu and
               Hui Yu and
               Kang Tu and
               Qianqian Shi and
               Chaochun Wei and
               Yuan{-}Yuan Li and
               Yi{-}Xue Li},
  title     = {cGRNB: a web server for building combinatorial gene regulatory networks
               through integrated engineering of seed-matching sequence information
               and gene expression datasets},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-2}},
  pages     = {S7},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S2-S7},
  doi       = {10.1186/1752-0509-7-S2-S7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/XuYTSWLL13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YangDMHJPD13,
  author    = {Ruoting Yang and
               Bernie J. Daigle Jr. and
               Seid Y. Muhie and
               Rasha Hammamieh and
               Marti Jett and
               Linda R. Petzold and
               Francis J. Doyle III},
  title     = {Core modular blood and brain biomarkers in social defeat mouse model
               for post traumatic stress disorder},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {80},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-80},
  doi       = {10.1186/1752-0509-7-80},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YangDMHJPD13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YangW13,
  author    = {Tzu{-}Hsien Yang and
               Wei{-}Sheng Wu},
  title     = {Inferring functional transcription factor-gene binding pairs by integrating
               transcription factor binding data with transcription factor knockout
               data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-6}},
  pages     = {S13},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S6-S13},
  doi       = {10.1186/1752-0509-7-S6-S13},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YangW13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YangZC13,
  author    = {Zhiyuan Yang and
               Yan Zhang and
               Luonan Chen},
  title     = {Investigation of anti-cancer mechanisms by comparative analysis of
               naked mole rat and rat},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-2}},
  pages     = {S5},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S2-S5},
  doi       = {10.1186/1752-0509-7-S2-S5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YangZC13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YinV13,
  author    = {Weiwei Yin and
               Eberhard O. Voit},
  title     = {Function and design of the Nox1 system in vascular smooth muscle cells},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {20},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-20},
  doi       = {10.1186/1752-0509-7-20},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YinV13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YlipaaY0N13,
  author    = {Antti Ylip{\"{a}}{\"{a}} and
               Olli Yli{-}Harja and
               Wei Zhang and
               Matti Nykter},
  title     = {Characterization of aberrant pathways across human cancers},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-1}},
  pages     = {S1},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S1-S1},
  doi       = {10.1186/1752-0509-7-S1-S1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YlipaaY0N13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YoshidaMKK13,
  author    = {Kenta Yoshida and
               Kazuya Maeda and
               Hiroyuki Kusuhara and
               Akihiko Konagaya},
  title     = {Estimation of feasible solution space using Cluster Newton Method:
               application to pharmacokinetic analysis of irinotecan with physiologically-based
               pharmacokinetic models},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-3}},
  pages     = {S3},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S3-S3},
  doi       = {10.1186/1752-0509-7-S3-S3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YoshidaMKK13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YousofshahiOLH13,
  author    = {Mona Yousofshahi and
               Michael Orshansky and
               Kyongbum Lee and
               Soha Hassoun},
  title     = {Probabilistic strain optimization under constraint uncertainty},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {29},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-29},
  doi       = {10.1186/1752-0509-7-29},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YousofshahiOLH13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YousofshahiUSH13,
  author    = {Mona Yousofshahi and
               Ehsan Ullah and
               Russell Stern and
               Soha Hassoun},
  title     = {MC\({}^{\mbox{3}}\): a steady-state model and constraint consistency
               checker for biochemical networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {129},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-129},
  doi       = {10.1186/1752-0509-7-129},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YousofshahiUSH13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YuLLZ13,
  author    = {Hui Yu and
               Chen{-}Ching Lin and
               Yuan{-}Yuan Li and
               Zhongming Zhao},
  title     = {Dynamic protein interaction modules in human hepatocellular carcinoma
               progression},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-5}},
  pages     = {S2},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S5-S2},
  doi       = {10.1186/1752-0509-7-S5-S2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YuLLZ13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/YvertONIFSO13,
  author    = {Ga{\"{e}}l Yvert and
               Shinsuke Ohnuki and
               Satoru Nogami and
               Yasutaka Imanaga and
               Steffen Fehrmann and
               Joseph Schacherer and
               Yoshikazu Ohya},
  title     = {Single-cell phenomics reveals intra-species variation of phenotypic
               noise in yeast},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {54},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-54},
  doi       = {10.1186/1752-0509-7-54},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/YvertONIFSO13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhangGS13,
  author    = {Xia Zhang and
               M. Heather West Greenlee and
               Jeanne M. Serb},
  title     = {EnRICH: Extraction and Ranking using Integration and Criteria Heuristics},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {4},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-4},
  doi       = {10.1186/1752-0509-7-4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhangGS13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhangLLLLLSDHX13,
  author    = {Hao Zhang and
               Zhi Li and
               Yanpu Li and
               Yuanning Liu and
               Junxin Liu and
               Xin Li and
               Tingjie Shen and
               Yunna Duan and
               Minggang Hu and
               Dong Xu},
  title     = {A computational method for predicting regulation of human microRNAs
               on the influenza virus genome},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-2}},
  pages     = {S3},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S2-S3},
  doi       = {10.1186/1752-0509-7-S2-S3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhangLLLLLSDHX13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhangWMD13,
  author    = {Fan Zhang and
               Mu Wang and
               Tran Michael and
               Renee Drabier},
  title     = {Novel alternative splicing isoform biomarkers identification from
               high-throughput plasma proteomics profiling of breast cancer},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-5}},
  pages     = {S8},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S5-S8},
  doi       = {10.1186/1752-0509-7-S5-S8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhangWMD13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhangZDS13,
  author    = {Shaoqiang Zhang and
               Xiguo Zhou and
               Chuanbin Du and
               Zhengchang Su},
  title     = {{SPIC:} {A} novel similarity metric for comparing transcription factor
               binding site motifs based on information contents},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-2}},
  pages     = {S14},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S2-S14},
  doi       = {10.1186/1752-0509-7-S2-S14},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhangZDS13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhangZWZ13,
  author    = {Junhua Zhang and
               Shi{-}Hua Zhang and
               Yong Wang and
               Xiang{-}Sun Zhang},
  title     = {Identification of mutated core cancer modules by integrating somatic
               mutation, copy number variation, and gene expression data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-2}},
  pages     = {S4},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S2-S4},
  doi       = {10.1186/1752-0509-7-S2-S4},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhangZWZ13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhouRHGJFYWW13,
  author    = {Hufeng Zhou and
               Javad Rezaei and
               Willy Hugo and
               Shangzhi Gao and
               Jingjing Jin and
               Mengyuan Fan and
               Chern Han Yong and
               Michal Wozniak and
               Limsoon Wong},
  title     = {Stringent DDI-based Prediction of H. sapiens-M. tuberculosis H37Rv
               Protein-Protein Interactions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  number    = {{S-6}},
  pages     = {S6},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-S6-S6},
  doi       = {10.1186/1752-0509-7-S6-S6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhouRHGJFYWW13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhouVWWWBO13,
  author    = {Yi Zhou and
               Alexei Vazquez and
               Aaron Wise and
               Tomoko Warita and
               Katsuhiko Warita and
               Ziv Bar{-}Joseph and
               Zolt{\'{a}}n N. Oltvai},
  title     = {Carbon catabolite repression correlates with the maintenance of near
               invariant molecular crowding in proliferating E. coli cells},
  journal   = {{BMC} Syst. Biol.},
  volume    = {7},
  pages     = {138},
  year      = {2013},
  url       = {https://doi.org/10.1186/1752-0509-7-138},
  doi       = {10.1186/1752-0509-7-138},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ZhouVWWWBO13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Alam-NazkiK12,
  author    = {Aiman Alam{-}Nazki and
               Jawahar Krishnan},
  title     = {An investigation of spatial signal transduction in cellular networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {83},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-83},
  doi       = {10.1186/1752-0509-6-83},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Alam-NazkiK12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AlshalalfaBGMA12,
  author    = {Mohammed Alshalalfa and
               Gary D. Bader and
               Anna Goldenberg and
               Quaid Morris and
               Reda Alhajj},
  title     = {Detecting microRNAs of high influence on protein functional interaction
               networks: a prostate cancer case study},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {112},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-112},
  doi       = {10.1186/1752-0509-6-112},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AlshalalfaBGMA12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AslamS12,
  author    = {Naveed Aslam and
               Harel Z. Shouval},
  title     = {Regulation of cytoplasmic polyadenylation can generate a bistable
               switch},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {12},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-12},
  doi       = {10.1186/1752-0509-6-12},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AslamS12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AuleyWJK12,
  author    = {Mark Mc Auley and
               Darren J. Wilkinson and
               Janette Jones and
               Thomas B. L. Kirkwood},
  title     = {A whole-body mathematical model of cholesterol metabolism and its
               age-associated dysregulation},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {130},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-130},
  doi       = {10.1186/1752-0509-6-130},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/AuleyWJK12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BazzaniHH12,
  author    = {Susanna Bazzani and
               Andreas Hoppe and
               Hermann{-}Georg Holzh{\"{u}}tter},
  title     = {Network-based assessment of the selectivity of metabolic drug targets
               in Plasmodium falciparum with respect to human liver metabolism},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {118},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-118},
  doi       = {10.1186/1752-0509-6-118},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BazzaniHH12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Beguerisse-DiazHLBD12,
  author    = {Mariano Beguerisse{-}D{\'{\i}}az and
               Mercedes C. Hern{\'{a}}ndez{-}G{\'{o}}mez and
               Alessandro M. Lizzul and
               Mauricio Barahona and
               Radhika Desikan},
  title     = {Compound stress response in stomatal closure: a mathematical model
               of {ABA} and ethylene interaction in guard cells},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {146},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-146},
  doi       = {10.1186/1752-0509-6-146},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Beguerisse-DiazHLBD12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BeisserGKFSHDKDM12,
  author    = {Daniela Beisser and
               Markus A. Grohme and
               Joachim Kopka and
               Marcus Frohme and
               Ralph O. Schill and
               Steffen Hengherr and
               Thomas Dandekar and
               Gunnar W. Klau and
               Marcus T. Dittrich and
               Tobias M{\"{u}}ller},
  title     = {Integrated pathway modules using time-course metabolic profiles and
               {EST} data from Milnesium tardigradum},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {72},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-72},
  doi       = {10.1186/1752-0509-6-72},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BeisserGKFSHDKDM12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Ben-HamoE12,
  author    = {Rotem Ben{-}Hamo and
               Sol Efroni},
  title     = {Biomarker robustness reveals the {PDGF} network as driving disease
               outcome in ovarian cancer patients in multiple studies},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {3},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-3},
  doi       = {10.1186/1752-0509-6-3},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/Ben-HamoE12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BiliourisBSK12,
  author    = {Konstantinos Biliouris and
               David Babson and
               Claudia Schmidt{-}Dannert and
               Yiannis N. Kaznessis},
  title     = {Stochastic simulations of a synthetic bacteria-yeast ecosystem},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {58},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-58},
  doi       = {10.1186/1752-0509-6-58},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BiliourisBSK12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BirtwistleRKADHKOK12,
  author    = {Marc R. Birtwistle and
               Jens Rauch and
               Anatoly Kiyatkin and
               Edita Aksamitiene and
               Maciej Dobrzynski and
               Jan B. Hoek and
               Walter Kolch and
               Babatunde A. Ogunnaike and
               Boris N. Kholodenko},
  title     = {Emergence of bimodal cell population responses from the interplay
               between analog single-cell signaling and protein expression noise},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {109},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-109},
  doi       = {10.1186/1752-0509-6-109},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BirtwistleRKADHKOK12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BoeleOT12,
  author    = {Joost Boele and
               Brett G. Olivier and
               Bas Teusink},
  title     = {FAME, the Flux Analysis and Modeling Environment},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {8},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-8},
  doi       = {10.1186/1752-0509-6-8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BoeleOT12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BosiaOBCC12,
  author    = {Carla Bosia and
               Matteo Osella and
               Mariama El Baroudi and
               Davide Cor{\`{a}} and
               Michele Caselle},
  title     = {Gene autoregulation via intronic microRNAs and its functions},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {131},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-131},
  doi       = {10.1186/1752-0509-6-131},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BosiaOBCC12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BravoOME12,
  author    = {Maria Bravo and
               Thomas Orfeo and
               Kenneth G. Mann and
               Stephen J. Everse},
  title     = {Modeling of human factor Va inactivation by activated protein {C}},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {45},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-45},
  doi       = {10.1186/1752-0509-6-45},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BravoOME12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BrettnerM12,
  author    = {Leandra M. Brettner and
               Joanna Masel},
  title     = {Protein stickiness, rather than number of functional protein-protein
               interactions, predicts expression noise and plasticity in yeast},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {128},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-128},
  doi       = {10.1186/1752-0509-6-128},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BrettnerM12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/BrownL12,
  author    = {Sherry{-}Ann Brown and
               Leslie M. Loew},
  title     = {Computational analysis of calcium signaling and membrane electrophysiology
               in cerebellar Purkinje neurons associated with ataxia},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {70},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-70},
  doi       = {10.1186/1752-0509-6-70},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/BrownL12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ByrneDS12,
  author    = {David Byrne and
               Alexandra Dumitriu and
               Daniel Segr{\`{e}}},
  title     = {Comparative multi-goal tradeoffs in systems engineering of microbial
               metabolism},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {127},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-127},
  doi       = {10.1186/1752-0509-6-127},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ByrneDS12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CaiHGLKW12,
  author    = {Hong Cai and
               Changjin Hong and
               Jianying Gu and
               Timothy G. Lilburn and
               Rui Kuang and
               Yufeng Wang},
  title     = {Module-based subnetwork alignments reveal novel transcriptional regulators
               in malaria parasite Plasmodium falciparum},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  number    = {{S-3}},
  pages     = {S5},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-S3-S5},
  doi       = {10.1186/1752-0509-6-S3-S5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CaiHGLKW12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CaiWZ012,
  author    = {Bingjing Cai and
               Haiying Wang and
               Huiru Zheng and
               Hui Wang},
  title     = {Detection of protein complexes from affinity purification/mass spectrometry
               data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  number    = {{S-3}},
  pages     = {S4},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-S3-S4},
  doi       = {10.1186/1752-0509-6-S3-S4},
  timestamp = {Thu, 18 Jun 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CaiWZ012.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CarbonellFPF12,
  author    = {Pablo Carbonell and
               Davide Fichera and
               Shashi Bhushan Pandit and
               Jean{-}Loup Faulon},
  title     = {Enumerating metabolic pathways for the production of heterologous
               target chemicals in chassis organisms},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {10},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-10},
  doi       = {10.1186/1752-0509-6-10},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CarbonellFPF12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CaspetaSANN12,
  author    = {Luis Caspeta and
               Saeed Shoaie and
               Rasmus Agren and
               Intawat Nookaew and
               Jens Nielsen},
  title     = {Genome-scale metabolic reconstructions of Pichia stipitis and Pichia
               pastoris and in silico evaluation of their potentials},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {24},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-24},
  doi       = {10.1186/1752-0509-6-24},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CaspetaSANN12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChavaliBTJPP12,
  author    = {Arvind K. Chavali and
               Anna S. Blazier and
               Jose L. Tlaxca and
               Paul A. Jensen and
               Richard D. Pearson and
               Jason A. Papin},
  title     = {Metabolic network analysis predicts efficacy of FDA-approved drugs
               targeting the causative agent of a neglected tropical disease},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {27},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-27},
  doi       = {10.1186/1752-0509-6-27},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChavaliBTJPP12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChemmangattuvalappilTB12,
  author    = {Nishanth G. Chemmangattuvalappil and
               Keith Task and
               Ipsita Banerjee},
  title     = {An integer optimization algorithm for robust identification of non-linear
               gene regulatory networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {119},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-119},
  doi       = {10.1186/1752-0509-6-119},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChemmangattuvalappilTB12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChenH12,
  author    = {Bor{-}Sen Chen and
               Chih{-}Yuan Hsu},
  title     = {Robust synchronization control scheme of a population of nonlinear
               stochastic synthetic genetic oscillators under intrinsic and extrinsic
               molecular noise via quorum sensing},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {136},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-136},
  doi       = {10.1186/1752-0509-6-136},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChenH12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChenJQC12,
  author    = {Xi Chen and
               Hao Jiang and
               Yushan Qiu and
               Wai{-}Ki Ching},
  title     = {On optimal control policy for probabilistic Boolean network: a state
               reduction approach},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  number    = {{S-1}},
  pages     = {S8},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-S1-S8},
  doi       = {10.1186/1752-0509-6-S1-S8},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChenJQC12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChenPRSMSS12,
  author    = {Zhengzhang Chen and
               Kanchana Padmanabhan and
               Andrea M. Rocha and
               Yekaterina Shpanskaya and
               James R. Mihelcic and
               Kathleen Scott and
               Nagiza F. Samatova},
  title     = {Spice: discovery of phenotype-determining component interplays},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {40},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-40},
  doi       = {10.1186/1752-0509-6-40},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChenPRSMSS12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChenWSZ12,
  author    = {Xin Chen and
               Qiong Wu and
               Ruimin Sun and
               Louxin Zhang},
  title     = {Two combinatorial optimization problems for {SNP} discovery using
               base-specific cleavage and mass spectrometry},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  number    = {{S-2}},
  pages     = {S5},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-S2-S5},
  doi       = {10.1186/1752-0509-6-S2-S5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChenWSZ12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChenYYAS12,
  author    = {Liang{-}Chun Chen and
               Hsiang{-}Yuan Yeh and
               Cheng{-}Yu Yeh and
               Carlos Arias and
               Von{-}Wun Soo},
  title     = {Identifying co-targets to fight drug resistance based on a random
               walk model},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {5},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-5},
  doi       = {10.1186/1752-0509-6-5},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChenYYAS12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChenZHWZ12,
  author    = {Chen Chen and
               Junfei Zhao and
               Qiang Huang and
               Rui{-}Sheng Wang and
               Xiang{-}Sun Zhang},
  title     = {Inferring domain-domain interactions from protein-protein interactions
               in the complex network conformation},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  number    = {{S-1}},
  pages     = {S7},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-S1-S7},
  doi       = {10.1186/1752-0509-6-S1-S7},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChenZHWZ12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChickarmaneOP12,
  author    = {Vijay Chickarmane and
               Victor Olariu and
               Carsten Peterson},
  title     = {Probing the role of stochasticity in a model of the embryonic stem
               cell - heterogeneous gene expression and reprogramming efficiency},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {98},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-98},
  doi       = {10.1186/1752-0509-6-98},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChickarmaneOP12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChouV12,
  author    = {I{-}Chun Chou and
               Eberhard O. Voit},
  title     = {Estimation of dynamic flux profiles from metabolic time series data},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {84},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-84},
  doi       = {10.1186/1752-0509-6-84},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChouV12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChungL12,
  author    = {Bevan Chung and
               Dong{-}Yup Lee},
  title     = {Computational codon optimization of synthetic gene for protein expression},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {134},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-134},
  doi       = {10.1186/1752-0509-6-134},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ChungL12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ClarkDTKM12,
  author    = {Neil R. Clark and
               Ruth Dannenfelser and
               Christopher M. Tan and
               Michael E. Komosinski and
               Avi Ma'ayan},
  title     = {Sets2Networks: network inference from repeated observations of sets},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {89},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-89},
  doi       = {10.1186/1752-0509-6-89},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/ClarkDTKM12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CoskunQCCCYJDLOO12,
  author    = {Sarp A. Coskun and
               Xinjian Qi and
               Ali Cakmak and
               En Cheng and
               A. Ercument Cicek and
               Lei Yang and
               Rishiraj Jadeja and
               Ranjan K. Dash and
               Nicola Lai and
               Gultekin {\"{O}}zsoyoglu and
               Z. Meral {\"{O}}zsoyoglu},
  title     = {PathCase-SB: integrating data sources and providing tools for systems
               biology research},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {67},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-67},
  doi       = {10.1186/1752-0509-6-67},
  timestamp = {Thu, 11 Jun 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CoskunQCCCYJDLOO12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CreamerSACTBHBHHP12,
  author    = {Matthew S. Creamer and
               Edward C. Stites and
               Meraj Aziz and
               James A. Cahill and
               Chin Wee Tan and
               Michael E. Berens and
               Haiyong Han and
               Kimberly J. Bussey and
               Daniel D. Von Hoff and
               William S. Hlavacek and
               Richard G. Posner},
  title     = {Specification, annotation, visualization and simulation of a large
               rule-based model for {ERBB} receptor signaling},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {107},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-107},
  doi       = {10.1186/1752-0509-6-107},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CreamerSACTBHBHHP12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CrespoRJKS12,
  author    = {Isaac Crespo and
               Kirsten Roomp and
               Wiktor Jurkowski and
               Hiroaki Kitano and
               Antonio del Sol},
  title     = {Gene regulatory network analysis supports inflammation as a key neurodegeneration
               process in prion disease},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {132},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-132},
  doi       = {10.1186/1752-0509-6-132},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CrespoRJKS12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CroftSJG12,
  author    = {Larry Croft and
               Damian Szklarczyk and
               Lars Juhl Jensen and
               Jan Gorodkin},
  title     = {Multiple independent analyses reveal only transcription factors as
               an enriched functional class associated with microRNAs},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {90},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-90},
  doi       = {10.1186/1752-0509-6-90},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CroftSJG12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CrownAA12,
  author    = {Scott B. Crown and
               Woo Ahn and
               Maciek R. Antoniewicz},
  title     = {Rational design of \({}^{\mbox{13}}\)C-labeling experiments for metabolic
               flux analysis in mammalian cells},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {43},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-43},
  doi       = {10.1186/1752-0509-6-43},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CrownAA12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/CruzHDWPHDG12,
  author    = {Ana Luisa B. Cruz and
               Marit Hebly and
               Giang{-}Huong Duong and
               Sebastian A. Wahl and
               Jack T. Pronk and
               Joseph J. Heijnen and
               Pascale A. S. Daran{-}Lapujade and
               Walter M. van Gulik},
  title     = {Similar temperature dependencies of glycolytic enzymes: an evolutionary
               adaptation to temperature dynamics?},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {151},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-151},
  doi       = {10.1186/1752-0509-6-151},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/CruzHDWPHDG12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/DAuriaDGKWCSLPH12,
  author    = {Kevin M. D'Auria and
               Gina M. Donato and
               Mary C. Gray and
               Glynis L. Kolling and
               Cirle A. Warren and
               Lauren M. Cave and
               Michael D. Solga and
               Joanne A. Lannigan and
               Jason A. Papin and
               Erik L. Hewlett},
  title     = {Systems analysis of the transcriptional response of human ileocecal
               epithelial cells to Clostridium difficile toxins and effects on cell
               cycle control},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {2},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-2},
  doi       = {10.1186/1752-0509-6-2},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/DAuriaDGKWCSLPH12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/DaiLLZ12,
  author    = {Chao Dai and
               Wenyuan Li and
               Juan Liu and
               Xianghong Jasmine Zhou},
  title     = {Integrating many co-splicing networks to reconstruct splicing regulatory
               modules},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  number    = {{S-1}},
  pages     = {S17},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-S1-S17},
  doi       = {10.1186/1752-0509-6-S1-S17},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/DaiLLZ12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/DasY12,
  author    = {Jishnu Das and
               Haiyuan Yu},
  title     = {{HINT:} High-quality protein interactomes and their applications in
               understanding human disease},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {92},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-92},
  doi       = {10.1186/1752-0509-6-92},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/DasY12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/DongC12,
  author    = {Chao{-}Yi Dong and
               Kwang{-}Hyun Cho},
  title     = {An optimally evolved connective ratio of neural networks that maximizes
               the occurrence of synchronized bursting behavior},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {23},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-23},
  doi       = {10.1186/1752-0509-6-23},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/DongC12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/DrawertEH12,
  author    = {Brian Drawert and
               Stefan Engblom and
               Andreas Hellander},
  title     = {{URDME:} a modular framework for stochastic simulation of reaction-transport
               processes in complex geometries},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {76},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-76},
  doi       = {10.1186/1752-0509-6-76},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/DrawertEH12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/EssackMSB12,
  author    = {Magbubah Essack and
               Cameron MacPherson and
               Sebastian Schmeier and
               Vladimir B. Bajic},
  title     = {Identification of estrogen responsive genes using esophageal squamous
               cell carcinoma {(ESCC)} as a model},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {135},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-135},
  doi       = {10.1186/1752-0509-6-135},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/EssackMSB12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FacchettiZA12,
  author    = {Giuseppe Facchetti and
               Mattia Zampieri and
               Claudio Altafini},
  title     = {Predicting and characterizing selective multiple drug treatments for
               metabolic diseases and cancer},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {115},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-115},
  doi       = {10.1186/1752-0509-6-115},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FacchettiZA12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FanGPLTPL12,
  author    = {ShengJun Fan and
               Qiang Geng and
               Zhen{-}Yu Pan and
               Xin Li and
               Lu Tie and
               Yan Pan and
               Xuejun Li},
  title     = {Clarifying off-target effects for torcetrapib using network pharmacology
               and reverse docking approach},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {152},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-152},
  doi       = {10.1186/1752-0509-6-152},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FanGPLTPL12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FengXCT12,
  author    = {Xueyang Feng and
               You Xu and
               Yixin Chen and
               Yinjie J. Tang},
  title     = {MicrobesFlux: a web platform for drafting metabolic models from the
               {KEGG} database},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {94},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-94},
  doi       = {10.1186/1752-0509-6-94},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FengXCT12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FloresLYSRLVLM12,
  author    = {Ricardo J. Flores and
               Yiting Li and
               Alexander Yu and
               Jianhe Shen and
               Pulivarthi H. Rao and
               Serrine S. Lau and
               Marina Vannucci and
               Ching C. Lau and
               Tsz{-}Kwong Man},
  title     = {A systems biology approach reveals common metastatic pathways in osteosarcoma},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {50},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-50},
  doi       = {10.1186/1752-0509-6-50},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FloresLYSRLVLM12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FuJZX12,
  author    = {Yan Fu and
               Xiaoshan Jiang and
               Hang Zhang and
               Jianhua Xing},
  title     = {A strategy to study pathway cross-talks of cells under repetitive
               exposure to stimuli},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  number    = {{S-3}},
  pages     = {S6},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-S3-S6},
  doi       = {10.1186/1752-0509-6-S3-S6},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FuJZX12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FuTDWCLZGC12,
  author    = {Jihong Fu and
               Wentao Tang and
               Peng Du and
               Guanghui Wang and
               Wei Chen and
               Jingming Li and
               Yunxiang Zhu and
               Jun Gao and
               Long Cui},
  title     = {Identifying MicroRNA-mRNA regulatory network in colorectal cancer
               by a combination of expression profile and bioinformatics analysis},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {68},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-68},
  doi       = {10.1186/1752-0509-6-68},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FuTDWCLZGC12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/FujitaSKSPM12,
  author    = {Andr{\'{e}} Fujita and
               Patricia Severino and
               Kaname Kojima and
               Jo{\~{a}}o Ricardo Sato and
               Alexandre Galv{\~{a}}o Patriota and
               Satoru Miyano},
  title     = {Functional clustering of time series gene expression data by Granger
               causality},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {137},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-137},
  doi       = {10.1186/1752-0509-6-137},
  timestamp = {Mon, 15 Jun 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/FujitaSKSPM12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GaoCLWCZD12,
  author    = {Xianfu Gao and
               Wanjia Chen and
               Rongxia Li and
               Minfeng Wang and
               Chunlei Chen and
               Rong Zeng and
               Yueyi Deng},
  title     = {Systematic variations associated with renal disease uncovered by parallel
               metabolomics of urine and serum},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  number    = {{S-1}},
  pages     = {S14},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-S1-S14},
  doi       = {10.1186/1752-0509-6-S1-S14},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GaoCLWCZD12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GidvaniSLDMDI12,
  author    = {Rohan D. Gidvani and
               Peter Sudmant and
               Grace Li and
               Lance F. DaSilva and
               Brendan J. McConkey and
               Bernard P. Duncker and
               Brian P. Ingalls},
  title     = {A quantitative model of the initiation of {DNA} replication in Saccharomyces
               cerevisiae predicts the effects of system perturbations},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {78},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-78},
  doi       = {10.1186/1752-0509-6-78},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GidvaniSLDMDI12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GonnetDWS12,
  author    = {Pedro Gonnet and
               Sotiris Dimopoulos and
               Lukas Widmer and
               J{\"{o}}rg Stelling},
  title     = {A specialized {ODE} integrator for the efficient computation of parameter
               sensitivities},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {46},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-46},
  doi       = {10.1186/1752-0509-6-46},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GonnetDWS12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GrieneisenSHM12,
  author    = {Ver{\^{o}}nica A. Grieneisen and
               Ben Scheres and
               Paulien Hogeweg and
               Athanasius F. M. Mar{\'{e}}e},
  title     = {Morphogengineering roots: comparing mechanisms of morphogen gradient
               formation},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {37},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-37},
  doi       = {10.1186/1752-0509-6-37},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GrieneisenSHM12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GuLCZW12,
  author    = {Zuguang Gu and
               Jialin Liu and
               Kunming Cao and
               Junfeng Zhang and
               Jin Wang},
  title     = {Centrality-based pathway enrichment: a systematic approach for finding
               significant pathways dominated by key genes},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {56},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-56},
  doi       = {10.1186/1752-0509-6-56},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GuLCZW12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/GuZW12,
  author    = {Zuguang Gu and
               Chenyu Zhang and
               Jin Wang},
  title     = {Gene regulation is governed by a core network in hepatocellular carcinoma},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {32},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-32},
  doi       = {10.1186/1752-0509-6-32},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/GuZW12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HaleLC12,
  author    = {Paul J. Hale and
               Alfredo M. L{\'{o}}pez{-}Yunez and
               Jake Y. Chen},
  title     = {Genome-wide meta-analysis of genetic susceptible genes for Type 2
               Diabetes},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  number    = {{S-3}},
  pages     = {S16},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-S3-S16},
  doi       = {10.1186/1752-0509-6-S3-S16},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HaleLC12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HanCTX12,
  author    = {Bing Han and
               Xue{-}wen Chen and
               Zohreh Talebizadeh and
               Hua Xu},
  title     = {Genetic studies of complex human diseases: Characterizing SNP-disease
               associations using Bayesian networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  number    = {{S-3}},
  pages     = {S14},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-S3-S14},
  doi       = {10.1186/1752-0509-6-S3-S14},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HanCTX12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HaoRL12,
  author    = {Dapeng Hao and
               Cong Ren and
               Chuanxing Li},
  title     = {Revisiting the variation of clustering coefficient of biological networks
               suggests new modular structure},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {34},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-34},
  doi       = {10.1186/1752-0509-6-34},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HaoRL12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HaubrockLW12,
  author    = {Martin Haubrock and
               Jie Li and
               Edgar Wingender},
  title     = {Using potential master regulator sites and paralogous expansion to
               construct tissue-specific transcriptional networks},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  number    = {{S-2}},
  pages     = {S15},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-S2-S15},
  doi       = {10.1186/1752-0509-6-S2-S15},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HaubrockLW12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HauryMVV12,
  author    = {Anne{-}Claire Haury and
               Fantine Mordelet and
               Paola Vera{-}Licona and
               Jean{-}Philippe Vert},
  title     = {{TIGRESS:} Trustful Inference of Gene REgulation using Stability Selection},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {145},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-145},
  doi       = {10.1186/1752-0509-6-145},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HauryMVV12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HeavnerSBMW12,
  author    = {Benjamin D. Heavner and
               Kieran Smallbone and
               Brandon Barker and
               Pedro Mendes and
               Larry P. Walker},
  title     = {Yeast 5 - an expanded reconstruction of the Saccharomyces cerevisiae
               metabolic network},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {55},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-55},
  doi       = {10.1186/1752-0509-6-55},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HeavnerSBMW12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HelikarKMBRMWSLR12,
  author    = {Tom{\'{a}}s Helikar and
               Bryan M. Kowal and
               Sean McClenathan and
               Mitchell Bruckner and
               Thaine W. Rowley and
               Alex Madrahimov and
               Benjamin Wicks and
               Manish Shrestha and
               Kahani Limbu and
               Jim A. Rogers},
  title     = {The Cell Collective: Toward an open and collaborative approach to
               systems biology},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {96},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-96},
  doi       = {10.1186/1752-0509-6-96},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HelikarKMBRMWSLR12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HepburnCWS12,
  author    = {Iain Hepburn and
               Weiliang Chen and
               Stefan Wils and
               Erik De Schutter},
  title     = {{STEPS:} efficient simulation of stochastic reaction-diffusion models
               in realistic morphologies},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {36},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-36},
  doi       = {10.1186/1752-0509-6-36},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HepburnCWS12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HoekM12,
  author    = {Milan van Hoek and
               Roeland Merks},
  title     = {Redox balance is key to explaining full vs. partial switching to low-yield
               metabolism},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {22},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-22},
  doi       = {10.1186/1752-0509-6-22},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HoekM12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HongKKKSCS12,
  author    = {Ji{-}Young Hong and
               Geun{-}Hong Kim and
               Jun{-}Woo Kim and
               Soon{-}Sung Kwon and
               Eisuke F. Sato and
               Kwang{-}Hyun Cho and
               Eun Bo Shim},
  title     = {Computational modeling of apoptotic signaling pathways induced by
               cisplatin},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {122},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-122},
  doi       = {10.1186/1752-0509-6-122},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HongKKKSCS12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HongLKKCS12,
  author    = {Changki Hong and
               Minho Lee and
               Dongsup Kim and
               Dong San Kim and
               Kwang{-}Hyun Cho and
               Insik Shin},
  title     = {A checkpoints capturing timing-robust Boolean model of the budding
               yeast cell cycle regulatory network},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {129},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-129},
  doi       = {10.1186/1752-0509-6-129},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HongLKKCS12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HongX0T12,
  author    = {Tian Hong and
               Jianhua Xing and
               Liwu Li and
               John J. Tyson},
  title     = {A simple theoretical framework for understanding heterogeneous differentiation
               of CD4\({}^{\mbox{+}}\) {T} cells},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {66},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-66},
  doi       = {10.1186/1752-0509-6-66},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HongX0T12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HuangCCCC12,
  author    = {Yu{-}Feng Huang and
               Sheng{-}Chung Chen and
               Yih{-}Shien Chiang and
               Tzu{-}Han Chen and
               Kuo{-}Ping Chiu},
  title     = {Palindromic sequence impedes sequencing-by-ligation mechanism},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  number    = {{S-2}},
  pages     = {S10},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-S2-S10},
  doi       = {10.1186/1752-0509-6-S2-S10},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HuangCCCC12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/HuangZXSZ12,
  author    = {Yufei Huang and
               Zhongming Zhao and
               Hua Xu and
               Yu Shyr and
               Bing Zhang},
  title     = {Advances in systems biology: computational algorithms and applications},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  number    = {{S-3}},
  pages     = {S1},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-S3-S1},
  doi       = {10.1186/1752-0509-6-S3-S1},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/HuangZXSZ12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/IngkasuwanNPTBMCTC12,
  author    = {Papapit Ingkasuwan and
               Supatcharee Netrphan and
               Sukon Prasitwattanaseree and
               Morakot Tanticharoen and
               Sakarindr Bhumiratana and
               Asawin Meechai and
               Jeerayut Chaijaruwanich and
               Hideki Takahashi and
               Supapon Cheevadhanarak},
  title     = {Inferring transcriptional gene regulation network of starch metabolism
               in Arabidopsis thaliana leaves using graphical Gaussian model},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {100},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-100},
  doi       = {10.1186/1752-0509-6-100},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/IngkasuwanNPTBMCTC12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JayapandianZEZS12,
  author    = {Catherine P. Jayapandian and
               Meng Zhao and
               Rob M. Ewing and
               Guo{-}Qiang Zhang and
               Satya Sanket Sahoo},
  title     = {A semantic proteomics dashboard (SemPoD) for data management in translational
               research},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  number    = {{S-3}},
  pages     = {S20},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-S3-S20},
  doi       = {10.1186/1752-0509-6-S3-S20},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JayapandianZEZS12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JiaLZ12,
  author    = {Peilin Jia and
               Yang Liu and
               Zhongming Zhao},
  title     = {Integrative pathway analysis of genome-wide association studies and
               gene expression data in prostate cancer},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  number    = {{S-3}},
  pages     = {S13},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-S3-S13},
  doi       = {10.1186/1752-0509-6-S3-S13},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JiaLZ12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JiaSG12,
  author    = {Gengjie Jia and
               Gregory Stephanopoulos and
               Rudiyanto Gunawan},
  title     = {Incremental parameter estimation of kinetic metabolic network models},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  pages     = {142},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-142},
  doi       = {10.1186/1752-0509-6-142},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JiaSG12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/JiaoA12,
  author    = {Shuyun Jiao and
               Ping Ao},
  title     = {Absorbing phenomena and escaping time for Muller's ratchet in adaptive
               landscape},
  journal   = {{BMC} Syst. Biol.},
  volume    = {6},
  number    = {{S-1}},
  pages     = {S10},
  year      = {2012},
  url       = {https://doi.org/10.1186/1752-0509-6-S1-S10},
  doi       = {10.1186/1752-0509-6-S1-S10},
  timestamp = {Tue, 05 May 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/bmcsb/JiaoA12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
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