BibTeX records: James E. Galagan

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@article{DBLP:journals/nar/Santos-Zavaleta19,
  author       = {Alberto Santos{-}Zavaleta and
                  Heladia Salgado and
                  Socorro Gama{-}Castro and
                  Mishael S{\'{a}}nchez{-}P{\'{e}}rez and
                  Laura G{\'{o}}mez{-}Romero and
                  Daniela Ledezma{-}Tejeida and
                  Jair Santiago Garc{\'{\i}}a{-}Sotelo and
                  Kevin Alquicira{-}Hern{\'{a}}ndez and
                  Luis Mu{\~{n}}iz{-}Rascado and
                  Pablo Pe{\~{n}}a{-}Loredo and
                  Cecilia Ishida{-}Guti{\'{e}}rrez and
                  David A. Vel{\'{a}}zquez{-}Ram{\'{\i}}rez and
                  Victor del Moral{-}Ch{\'{a}}vez and
                  C{\'{e}}sar Bonavides{-}Mart{\'{\i}}nez and
                  Carlos{-}Francisco M{\'{e}}ndez{-}Cruz and
                  James E. Galagan and
                  Julio Collado{-}Vides},
  title        = {RegulonDB v 10.5: tackling challenges to unify classic and high throughput
                  knowledge of gene regulation in E. coli {K-12}},
  journal      = {Nucleic Acids Res.},
  volume       = {47},
  number       = {Database-Issue},
  pages        = {D212--D220},
  year         = {2019},
  url          = {https://doi.org/10.1093/nar/gky1077},
  doi          = {10.1093/NAR/GKY1077},
  timestamp    = {Sat, 30 Sep 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/nar/Santos-Zavaleta19.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    = {Sat, 30 Sep 2023 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/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    = {Fri, 09 Apr 2021 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/bmcsb/GarayDG15.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@inproceedings{DBLP:conf/icml/AziziAG14,
  author       = {Elham Azizi and
                  Edoardo M. Airoldi and
                  James E. Galagan},
  title        = {Learning Modular Structures from Network Data and Node Variables},
  booktitle    = {Proceedings of the 31th International Conference on Machine Learning,
                  {ICML} 2014, Beijing, China, 21-26 June 2014},
  series       = {{JMLR} Workshop and Conference Proceedings},
  volume       = {32},
  pages        = {1440--1448},
  publisher    = {JMLR.org},
  year         = {2014},
  url          = {http://proceedings.mlr.press/v32/azizi14.html},
  timestamp    = {Wed, 29 May 2019 08:41:45 +0200},
  biburl       = {https://dblp.org/rec/conf/icml/AziziAG14.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/corr/AziziGA14,
  author       = {Elham Azizi and
                  James E. Galagan and
                  Edoardo M. Airoldi},
  title        = {Learning modular structures from network data and node variables},
  journal      = {CoRR},
  volume       = {abs/1405.2566},
  year         = {2014},
  url          = {http://arxiv.org/abs/1405.2566},
  eprinttype    = {arXiv},
  eprint       = {1405.2566},
  timestamp    = {Mon, 13 Aug 2018 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/corr/AziziGA14.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/nature/GalaganMPLASGRD13,
  author       = {James E. Galagan and
                  Kyle J. Minch and
                  Matthew Peterson and
                  Anna Lyubetskaya and
                  Elham Azizi and
                  Linsday Sweet and
                  Antonio Gomes and
                  Tige R. Rustad and
                  Gregory Dolganov and
                  Irina Glotova and
                  Thomas Abeel and
                  Chris Mahwinney and
                  Adam D. Kennedy and
                  Ren{\'{e}} Allard and
                  William Brabant and
                  Andrew Krueger and
                  Suma Jaini and
                  Brent Honda and
                  Wen{-}Han Yu and
                  Mark J. Hickey and
                  Jeremy Zucker and
                  Christopher Garay and
                  Brian Weiner and
                  Peter Sisk and
                  Christian Stolte and
                  Jessica K. Winkler and
                  Yves Van de Peer and
                  Paul Iazzetti and
                  Diogo Camacho and
                  Jonathan M. Dreyfuss and
                  Yang Liu and
                  Anca Dorhoi and
                  Hans{-}Joachim Mollenkopf and
                  Paul Drogaris and
                  Julie Lamontagne and
                  Yiyong Zhou and
                  Julie Piquenot and
                  Sang Tae Park and
                  Sahadevan Raman and
                  Stefan H. E. Kaufmann and
                  Robert P. Mohney and
                  Daniel Chelsky and
                  D. Branch Moody and
                  David R. Sherman and
                  Gary K. Schoolnik},
  title        = {The \emph{Mycobacterium tuberculosis} regulatory network and hypoxia},
  journal      = {Nat.},
  volume       = {499},
  number       = {7457},
  pages        = {178--183},
  year         = {2013},
  url          = {https://doi.org/10.1038/nature12337},
  doi          = {10.1038/NATURE12337},
  timestamp    = {Sat, 30 Sep 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/nature/GalaganMPLASGRD13.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/ploscb/DreyfussZHOSG13,
  author       = {Jonathan M. Dreyfuss and
                  Jeremy D. Zucker and
                  Heather M. Hood and
                  Linda R. Ocasio and
                  Matthew S. Sachs and
                  James E. Galagan},
  title        = {Reconstruction and Validation of a Genome-Scale Metabolic Model for
                  the Filamentous Fungus \emph{Neurospora crassa} Using {FARM}},
  journal      = {PLoS Comput. Biol.},
  volume       = {9},
  number       = {7},
  year         = {2013},
  url          = {https://doi.org/10.1371/journal.pcbi.1003126},
  doi          = {10.1371/JOURNAL.PCBI.1003126},
  timestamp    = {Thu, 10 Sep 2020 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/ploscb/DreyfussZHOSG13.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/nar/ReddyRWMDEGHJJKLMNSSWWZSGBS09,
  author       = {T. B. K. Reddy and
                  Robert Riley and
                  Farrell Wymore and
                  Phillip Montgomery and
                  David DeCaprio and
                  Reinhard Engels and
                  Marcel Gellesch and
                  Jeremy Hubble and
                  Dennis Jen and
                  Heng Jin and
                  Michael Koehrsen and
                  Lisa Larson and
                  Maria Mao and
                  Michael Nitzberg and
                  Peter Sisk and
                  Christian Stolte and
                  Brian Weiner and
                  Jared White and
                  Zachariah K. Zachariah and
                  Gavin Sherlock and
                  James E. Galagan and
                  Catherine A. Ball and
                  Gary K. Schoolnik},
  title        = {{TB} database: an integrated platform for tuberculosis research},
  journal      = {Nucleic Acids Res.},
  volume       = {37},
  number       = {Database-Issue},
  pages        = {499--508},
  year         = {2009},
  url          = {https://doi.org/10.1093/nar/gkn652},
  doi          = {10.1093/NAR/GKN652},
  timestamp    = {Mon, 26 Oct 2020 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/nar/ReddyRWMDEGHJJKLMNSSWWZSGBS09.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/ploscb/ColijnBZLWFCMMG09,
  author       = {Caroline Colijn and
                  Aaron Brandes and
                  Jeremy Zucker and
                  Desmond S. Lun and
                  Brian Weiner and
                  Maha R. Farhat and
                  Tan{-}Yun Cheng and
                  D. Branch Moody and
                  Megan Murray and
                  James E. Galagan},
  title        = {Interpreting Expression Data with Metabolic Flux Models: Predicting
                  \emph{Mycobacterium tuberculosis} Mycolic Acid Production},
  journal      = {PLoS Comput. Biol.},
  volume       = {5},
  number       = {8},
  year         = {2009},
  url          = {https://doi.org/10.1371/journal.pcbi.1000489},
  doi          = {10.1371/JOURNAL.PCBI.1000489},
  timestamp    = {Mon, 26 Oct 2020 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/ploscb/ColijnBZLWFCMMG09.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/bioinformatics/EngelsYBMDG06,
  author       = {Reinhard Engels and
                  Tamara Yu and
                  Christopher B. Burge and
                  Jill P. Mesirov and
                  David DeCaprio and
                  James E. Galagan},
  title        = {Combo: a whole genome comparative browser},
  journal      = {Bioinform.},
  volume       = {22},
  number       = {14},
  pages        = {1782--1783},
  year         = {2006},
  url          = {https://doi.org/10.1093/bioinformatics/btl193},
  doi          = {10.1093/BIOINFORMATICS/BTL193},
  timestamp    = {Mon, 02 Mar 2020 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/bioinformatics/EngelsYBMDG06.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@inproceedings{DBLP:conf/nips/VinsonDPLG06,
  author       = {Jade P. Vinson and
                  David DeCaprio and
                  Matthew D. Pearson and
                  Stacey Luoma and
                  James E. Galagan},
  editor       = {Bernhard Sch{\"{o}}lkopf and
                  John C. Platt and
                  Thomas Hofmann},
  title        = {Comparative Gene Prediction using Conditional Random Fields},
  booktitle    = {Advances in Neural Information Processing Systems 19, Proceedings
                  of the Twentieth Annual Conference on Neural Information Processing
                  Systems, Vancouver, British Columbia, Canada, December 4-7, 2006},
  pages        = {1441--1448},
  publisher    = {{MIT} Press},
  year         = {2006},
  url          = {https://proceedings.neurips.cc/paper/2006/hash/65a31da7ede4dc9b03fb5bbf8f442ce9-Abstract.html},
  timestamp    = {Mon, 16 May 2022 15:41:51 +0200},
  biburl       = {https://dblp.org/rec/conf/nips/VinsonDPLG06.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/bioinformatics/MikkelsenGM05,
  author       = {Tarjei S. Mikkelsen and
                  James E. Galagan and
                  Jill P. Mesirov},
  title        = {Improving genome annotations using phylogenetic profile anomaly detection},
  journal      = {Bioinform.},
  volume       = {21},
  number       = {4},
  pages        = {464--470},
  year         = {2005},
  url          = {https://doi.org/10.1093/bioinformatics/bti027},
  doi          = {10.1093/BIOINFORMATICS/BTI027},
  timestamp    = {Mon, 02 Mar 2020 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/bioinformatics/MikkelsenGM05.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}