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@article{DBLP:journals/biomedsem/AlthubaitiKAH20,
  author    = {Sara Althubaiti and
               Senay Kafkas and
               Marwa Abdelhakim and
               Robert Hoehndorf},
  title     = {Combining lexical and context features for automatic ontology extension},
  journal   = {J. Biomed. Semant.},
  volume    = {11},
  number    = {1},
  pages     = {1},
  year      = {2020},
  url       = {https://doi.org/10.1186/s13326-019-0218-0},
  doi       = {10.1186/s13326-019-0218-0},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/AlthubaitiKAH20.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/AberdeenBCKT19,
  author    = {John S. Aberdeen and
               Samuel Bayer and
               Cheryl Clark and
               Meredith Keybl and
               David Tresner{-}Kirsch},
  title     = {An annotation and modeling schema for prescription regimens},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {10:1--10:11},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-019-0201-9},
  doi       = {10.1186/s13326-019-0201-9},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/AberdeenBCKT19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/AlexGTSMW19,
  author    = {Beatrice Alex and
               Claire Grover and
               Richard Tobin and
               Cathie Sudlow and
               Grant Mair and
               William Whiteley},
  title     = {Text mining brain imaging reports},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {23:1--23:11},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-019-0211-7},
  doi       = {10.1186/s13326-019-0211-7},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/AlexGTSMW19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BurekSH19,
  author    = {Patryk Burek and
               Nico Scherf and
               Heinrich Herre},
  title     = {Ontology patterns for the representation of quality changes of cells
               in time},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {16:1--16:18},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-019-0206-4},
  doi       = {10.1186/s13326-019-0206-4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BurekSH19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/CasteleiroSDWPM19,
  author    = {Mercedes Arg{\"{u}}ello Casteleiro and
               Robert Stevens and
               Jose Julio Des Diz and
               Chris Wroe and
               Maria Jesus Fernandez Prieto and
               Nava Maroto and
               Diego Maseda{-}Fernandez and
               George Demetriou and
               Simon Peters and
               Peter{-}J. Noble and
               Phil H. Jones and
               Jo Dukes{-}McEwan and
               Alan D. Radford and
               John A. Keane and
               Goran Nenadic},
  title     = {Exploring semantic deep learning for building reliable and reusable
               one health knowledge from PubMed systematic reviews and veterinary
               clinical notes},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {22:1--22:28},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-019-0212-6},
  doi       = {10.1186/s13326-019-0212-6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/CasteleiroSDWPM19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ChiuMPWSKP19,
  author    = {Billy Chiu and
               Olga Majewska and
               Sampo Pyysalo and
               Laura Wey and
               Ulla Stenius and
               Anna Korhonen and
               Martha Palmer},
  title     = {A neural classification method for supporting the creation of BioVerbNet},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {2:1--2:12},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-018-0193-x},
  doi       = {10.1186/s13326-018-0193-x},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ChiuMPWSKP19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ConwayKCSVWMAC19,
  author    = {Mike Conway and
               Salomeh Keyhani and
               Lee M. Christensen and
               Brett R. South and
               Marzieh Vali and
               Louise C. Walter and
               Danielle L. Mowery and
               Samir E. AbdelRahman and
               Wendy W. Chapman},
  title     = {Moonstone: a novel natural language processing system for inferring
               social risk from clinical narratives},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {6:1--6:10},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-019-0198-0},
  doi       = {10.1186/s13326-019-0198-0},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ConwayKCSVWMAC19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Doing-HarrisBTS19,
  author    = {Kristina Doing{-}Harris and
               Bruce E. Bray and
               Anne Thackeray and
               Rashmee U. Shah and
               YiJun Shao and
               Yan Cheng and
               Qing Zeng{-}Treitler and
               Jennifer H. Garvin and
               Charlene R. Weir},
  title     = {Development of a cardiac-centered frailty ontology},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {3:1--3:16},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-019-0195-3},
  doi       = {10.1186/s13326-019-0195-3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Doing-HarrisBTS19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HeWZBMYLWCSAO19,
  author    = {Yongqun He and
               Haihe Wang and
               Jie Zheng and
               Daniel P. Beiting and
               Anna Maria Masci and
               Hong Yu and
               Kaiyong Liu and
               Jianmin Wu and
               Jeffrey L. Curtis and
               Barry Smith and
               Alexander V. Alekseyenko and
               Jihad S. Obeid},
  title     = {{OHMI:} the ontology of host-microbiome interactions},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {25},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-019-0217-1},
  doi       = {10.1186/s13326-019-0217-1},
  timestamp = {Sat, 05 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HeWZBMYLWCSAO19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HoldernessMCBMP19,
  author    = {Eben Holderness and
               Nicholas Miller and
               Philip Cawkwell and
               Kirsten Bolton and
               Marie Meteer and
               James Pustejovsky and
               Mei{-}Hua Hall},
  title     = {Analysis of risk factor domains in psychosis patient health records},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {19:1--19:10},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-019-0210-8},
  doi       = {10.1186/s13326-019-0210-8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HoldernessMCBMP19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/KafkasH19,
  author    = {Senay Kafkas and
               Robert Hoehndorf},
  title     = {Ontology based mining of pathogen-disease associations from literature},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {15:1--15:5},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-019-0208-2},
  doi       = {10.1186/s13326-019-0208-2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/KafkasH19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/KerslootLAAC19,
  author    = {Martijn G. Kersloot and
               Francis Y. Lau and
               Ameen Abu{-}Hanna and
               Derk L. Arts and
               Ronald Cornet},
  title     = {Automated {SNOMED} {CT} concept and attribute relationship detection
               through a web-based implementation of cTAKES},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {14:1--14:13},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-019-0207-3},
  doi       = {10.1186/s13326-019-0207-3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/KerslootLAAC19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Lithgow-Serrano19,
  author    = {Oscar Lithgow{-}Serrano and
               Socorro Gama{-}Castro and
               Cecilia Ishida{-}Guti{\'{e}}rrez and
               Citlalli Mej{\'{\i}}a{-}Almonte and
               V{\'{\i}}ctor H. Tierrafr{\'{\i}}a and
               Sara Mart{\'{\i}}nez{-}Luna and
               Alberto Santos{-}Zavaleta and
               David A. Vel{\'{a}}zquez{-}Ram{\'{\i}}rez and
               Julio Collado{-}Vides},
  title     = {Similarity corpus on microbial transcriptional regulation},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {8:1--8:14},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-019-0200-x},
  doi       = {10.1186/s13326-019-0200-x},
  timestamp = {Sat, 05 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Lithgow-Serrano19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Liu19,
  author    = {Rey{-}Long Liu},
  title     = {Identification of conclusive association entities in biomedical articles},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {1:1--1:20},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-018-0194-9},
  doi       = {10.1186/s13326-018-0194-9},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Liu19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/PanDW19,
  author    = {Huaqin Pan and
               Gail H. Deutsch and
               Susan E. Wert},
  title     = {Comprehensive anatomic ontologies for lung development: {A} comparison
               of alveolar formation and maturation within mouse and human lung},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {18:1--18:21},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-019-0209-1},
  doi       = {10.1186/s13326-019-0209-1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/PanDW19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/PiotrkowiczJH19,
  author    = {Alicja Piotrkowicz and
               Owen A. Johnson and
               Geoff Hall},
  title     = {Finding relevant free-text radiology reports at scale with {IBM} Watson
               Content Analytics: a feasibility study in the {UK} {NHS}},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {21:1--21:9},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-019-0213-5},
  doi       = {10.1186/s13326-019-0213-5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/PiotrkowiczJH19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SanderW19,
  author    = {Andr{\'{e}} Sander and
               Roland Wauer},
  title     = {Integrating terminologies into standard {SQL:} a new approach for
               research on routine data},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {7:1--7:11},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-019-0199-z},
  doi       = {10.1186/s13326-019-0199-z},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SanderW19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ShahBWDDH19,
  author    = {Anoop D. Shah and
               Emily Bailey and
               Tim Williams and
               Spiros C. Denaxas and
               Richard J. B. Dobson and
               Harry Hemingway},
  title     = {Natural language processing for disease phenotyping in {UK} primary
               care records for research: a pilot study in myocardial infarction
               and death},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {20:1--20:10},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-019-0214-4},
  doi       = {10.1186/s13326-019-0214-4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ShahBWDDH19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SiegeleLWCNGH19,
  author    = {Deborah A. Siegele and
               Sandra A. LaBonte and
               Peter I{-}Fan Wu and
               Marcus C. Chibucos and
               Suvarna Nandendla and
               Michelle G. Giglio and
               James C. Hu},
  title     = {Phenotype annotation with the ontology of microbial phenotypes {(OMP)}},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {13:1--13:8},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-019-0205-5},
  doi       = {10.1186/s13326-019-0205-5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SiegeleLWCNGH19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SpasicOSB19,
  author    = {Irena Spasic and
               David Owen and
               Andrew Smith and
               Kate Button},
  title     = {{KLOSURE:} Closing in on open-ended patient questionnaires with text
               mining},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {24:1--24:11},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-019-0215-3},
  doi       = {10.1186/s13326-019-0215-3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SpasicOSB19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/TissotD19,
  author    = {Hegler Tissot and
               Richard J. B. Dobson},
  title     = {Combining string and phonetic similarity matching to identify misspelt
               names of drugs in medical records written in Portuguese},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {17:1--17:7},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-019-0216-2},
  doi       = {10.1186/s13326-019-0216-2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/TissotD19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/UciteliKWMGRSBG19,
  author    = {Alexandr Uciteli and
               Stefan Kropf and
               Timo Weiland and
               Stefanie Meese and
               Klaus Graef and
               Sabrina Rohrer and
               Marc O. Schurr and
               Wolfram Bartussek and
               Christoph Goller and
               Philipp Blohm and
               Robin Seidel and
               Christian Bayer and
               Manuel Kernenbach and
               Kathrin Pfeiffer and
               Wolfgang Lauer and
               J{\"{o}}rg{-}Uwe Meyer and
               Michael Witte and
               Heinrich Herre},
  title     = {Ontology-based specification and generation of search queries for
               post-market surveillance},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {9:1--9:13},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-019-0203-7},
  doi       = {10.1186/s13326-019-0203-7},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/UciteliKWMGRSBG19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Vega-GorgojoSG19,
  author    = {Guillermo Vega{-}Gorgojo and
               Laura Slaughter and
               Martin Giese},
  title     = {Seeing the whole picture: integrated pre-surgery reports with PreOptique},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {5:1--5:15},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-019-0197-1},
  doi       = {10.1186/s13326-019-0197-1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Vega-GorgojoSG19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Vogt19,
  author    = {Lars Vogt},
  title     = {Levels and building blocks - toward a domain granularity framework
               for the life sciences},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {4:1--4:29},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-019-0196-2},
  doi       = {10.1186/s13326-019-0196-2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Vogt19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Vogt19a,
  author    = {Lars Vogt},
  title     = {Organizing phenotypic data - a semantic data model for anatomy},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {12:1--12:14},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-019-0204-6},
  doi       = {10.1186/s13326-019-0204-6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Vogt19a.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/WangHSTSG19,
  author    = {Lucy L. Wang and
               G. Thomas Hayman and
               Jennifer R. Smith and
               Monika Tutaj and
               Mary Shimoyama and
               John H. Gennari},
  title     = {Predicting instances of pathway ontology classes for pathway integration},
  journal   = {J. Biomed. Semant.},
  volume    = {10},
  number    = {1},
  pages     = {11:1--11:11},
  year      = {2019},
  url       = {https://doi.org/10.1186/s13326-019-0202-8},
  doi       = {10.1186/s13326-019-0202-8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/WangHSTSG19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/AgibetovJOSBGCO18,
  author    = {Asan Agibetov and
               Ernesto Jim{\'{e}}nez{-}Ruiz and
               Marta Ondresik and
               Alessandro Solimando and
               Imon Banerjee and
               Giovanna Guerrini and
               Chiara Eva Catalano and
               Joaquim Miguel Oliveira and
               Giuseppe Patan{\`{e}} and
               Rui Lu{\'{\i}}s Reis and
               Michela Spagnuolo},
  title     = {Supporting shared hypothesis testing in the biomedical domain},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {9:1--9:22},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-018-0177-x},
  doi       = {10.1186/s13326-018-0177-x},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/AgibetovJOSBGCO18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/AmithT18,
  author    = {Muhammad Amith and
               Cui Tao},
  title     = {Representing vaccine misinformation using ontologies},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {22:1--22:13},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-018-0190-0},
  doi       = {10.1186/s13326-018-0190-0},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/AmithT18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BarrosDR18,
  author    = {Joana M. Barros and
               Jim Duggan and
               Dietrich Rebholz{-}Schuhmann},
  title     = {Disease mentions in airport and hospital geolocations expose dominance
               of news events for disease concerns},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {18:1--18:11},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-018-0186-9},
  doi       = {10.1186/s13326-018-0186-9},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BarrosDR18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/CasteleiroDRPMM18,
  author    = {Mercedes Arg{\"{u}}ello Casteleiro and
               George Demetriou and
               Warren J. Read and
               Maria Jesus Fernandez Prieto and
               Nava Maroto and
               Diego Maseda{-}Fernandez and
               Goran Nenadic and
               Julie Klein and
               John A. Keane and
               Robert Stevens},
  title     = {Deep learning meets ontologies: experiments to anchor the cardiovascular
               disease ontology in the biomedical literature},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {13:1--13:24},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-018-0181-1},
  doi       = {10.1186/s13326-018-0181-1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/CasteleiroDRPMM18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Chandrasekarasastry18,
  author    = {Nagesh Panyam Chandrasekarasastry and
               Karin Verspoor and
               Trevor Cohn and
               Kotagiri Ramamohanarao},
  title     = {Exploiting graph kernels for high performance biomedical relation
               extraction},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {7:1--7:11},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-017-0168-3},
  doi       = {10.1186/s13326-017-0168-3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Chandrasekarasastry18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/El-SappaghKAK18,
  author    = {Shaker H. Ali El{-}Sappagh and
               Daehan Kwak and
               Farman Ali and
               Kyung Sup Kwak},
  title     = {{DMTO:} a realistic ontology for standard diabetes mellitus treatment},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {8:1--8:30},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-018-0176-y},
  doi       = {10.1186/s13326-018-0176-y},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/El-SappaghKAK18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/FariaPMMCC18,
  author    = {Daniel Faria and
               Catia Pesquita and
               Isabela Mott and
               Catarina Martins and
               Francisco M. Couto and
               Isabel F. Cruz},
  title     = {Tackling the challenges of matching biomedical ontologies},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {4:1--4:19},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-017-0170-9},
  doi       = {10.1186/s13326-017-0170-9},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/FariaPMMCC18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HeXZLOO18,
  author    = {Yongqun He and
               Zuoshuang Xiang and
               Jie Zheng and
               Yu Lin and
               James A. Overton and
               Edison Ong},
  title     = {The eXtensible ontology development {(XOD)} principles and tool implementation
               to support ontology interoperability},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {3:1--3:10},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-017-0169-2},
  doi       = {10.1186/s13326-017-0169-2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HeXZLOO18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HurOH18,
  author    = {Junguk Hur and
               Arzucan {\"{O}}zg{\"{u}}r and
               Yongqun He},
  title     = {Ontology-based literature mining and class effect analysis of adverse
               drug reactions associated with neuropathy-inducing drugs},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {17:1--17:10},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-018-0185-x},
  doi       = {10.1186/s13326-018-0185-x},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HurOH18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/JudkinsTBB18,
  author    = {John Judkins and
               Jessica Tay{-}Sontheimer and
               Richard D. Boyce and
               Mathias Brochhausen},
  title     = {Extending the {DIDEO} ontology to include entities from the natural
               product drug interaction domain of discourse},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {15:1--15:9},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-018-0183-z},
  doi       = {10.1186/s13326-018-0183-z},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/JudkinsTBB18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/KolyvakisKSK18,
  author    = {Prodromos Kolyvakis and
               Alexandros Kalousis and
               Barry Smith and
               Dimitris Kiritsis},
  title     = {Biomedical ontology alignment: an approach based on representation
               learning},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {21:1--21:20},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-018-0187-8},
  doi       = {10.1186/s13326-018-0187-8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/KolyvakisKSK18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/KropfUSKDH18,
  author    = {Stefan Kropf and
               Alexandr Uciteli and
               Katrin Schierle and
               Peter Kr{\"{u}}cken and
               Kerstin Denecke and
               Heinrich Herre},
  title     = {Querying archetype-based EHRs by search ontology-based XPath engineering},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {16:1--16:14},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-018-0180-2},
  doi       = {10.1186/s13326-018-0180-2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/KropfUSKDH18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/MatentzogluMMS18,
  author    = {Nicolas Matentzoglu and
               James Malone and
               Chris Mungall and
               Robert Stevens},
  title     = {{MIRO:} guidelines for minimum information for the reporting of an
               ontology},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {6:1--6:13},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-017-0172-7},
  doi       = {10.1186/s13326-017-0172-7},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/MatentzogluMMS18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Metke-JimenezSH18,
  author    = {Alejandro Metke{-}Jimenez and
               Jim Steel and
               David P. Hansen and
               Michael Lawley},
  title     = {Ontoserver: a syndicated terminology server},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {24:1--24:10},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-018-0191-z},
  doi       = {10.1186/s13326-018-0191-z},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Metke-JimenezSH18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/NeveolDVSZ18,
  author    = {Aur{\'{e}}lie N{\'{e}}v{\'{e}}ol and
               Hercules Dalianis and
               Sumithra Velupillai and
               Guergana Savova and
               Pierre Zweigenbaum},
  title     = {Clinical Natural Language Processing in languages other than English:
               opportunities and challenges},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {12:1--12:13},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-018-0179-8},
  doi       = {10.1186/s13326-018-0179-8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/NeveolDVSZ18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/OliveiraP18,
  author    = {Daniela Oliveira and
               Catia Pesquita},
  title     = {Improving the interoperability of biomedical ontologies with compound
               alignments},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {1:1--1:13},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-017-0171-8},
  doi       = {10.1186/s13326-017-0171-8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/OliveiraP18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/OsborneNDSB18,
  author    = {John David Osborne and
               Matthew B. Neu and
               Maria I. Danila and
               Thamar Solorio and
               Steven J. Bethard},
  title     = {{CUILESS2016:} a clinical corpus applying compositional normalization
               of text mentions},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {2:1--2:9},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-017-0173-6},
  doi       = {10.1186/s13326-017-0173-6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/OsborneNDSB18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Osumi-Sutherland18,
  author    = {David Osumi{-}Sutherland and
               Enrico Ponta and
               M{\'{e}}lanie Courtot and
               Helen E. Parkinson and
               Laura Badi},
  title     = {Using {OWL} reasoning to support the generation of novel gene sets
               for enrichment analysis},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {10:1--10:10},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-018-0175-z},
  doi       = {10.1186/s13326-018-0175-z},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Osumi-Sutherland18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/RindfleschBCFZK18,
  author    = {Thomas C. Rindflesch and
               Catherine Blake and
               Michael J. Cairelli and
               Marcelo Fiszman and
               Caroline J. Zeiss and
               Halil Kilicoglu},
  title     = {Investigating the role of interleukin-1 beta and glutamate in inflammatory
               bowel disease and epilepsy using discovery browsing},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {25:1--25:14},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-018-0192-y},
  doi       = {10.1186/s13326-018-0192-y},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/RindfleschBCFZK18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SenderovSFSCASM18,
  author    = {Viktor Senderov and
               Kiril Simov and
               Nico M. Franz and
               Pavel Stoev and
               Terry Catapano and
               Donat Agosti and
               Guido Sautter and
               Robert A. Morris and
               Lyubomir Penev},
  title     = {OpenBiodiv-O: ontology of the OpenBiodiv knowledge management system},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {5:1--5:15},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-017-0174-5},
  doi       = {10.1186/s13326-017-0174-5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SenderovSFSCASM18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ShenCTYL18,
  author    = {Ying Shen and
               Daoyuan Chen and
               Buzhou Tang and
               Min Yang and
               Kai Lei},
  title     = {{EAPB:} entropy-aware path-based metric for ontology quality},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {20:1--20:11},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-018-0188-7},
  doi       = {10.1186/s13326-018-0188-7},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ShenCTYL18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SolovievaSFN18,
  author    = {Elena Solovieva and
               Toshihide Shikanai and
               Noriaki Fujita and
               Hisashi Narimatsu},
  title     = {GGDonto ontology as a knowledge-base for genetic diseases and disorders
               of glycan metabolism and their causative genes},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {14:1--14:14},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-018-0182-0},
  doi       = {10.1186/s13326-018-0182-0},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SolovievaSFN18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/VlietstraVSMK18,
  author    = {Wytze J. Vlietstra and
               Rein Vos and
               Anneke M. Sijbers and
               Erik M. van Mulligen and
               Jan A. Kors},
  title     = {Using predicate and provenance information from a knowledge graph
               for drug efficacy screening},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {23:1--23:10},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-018-0189-6},
  doi       = {10.1186/s13326-018-0189-6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/VlietstraVSMK18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/WangZYZ18,
  author    = {Junxiang Wang and
               Liang Zhao and
               Yanfang Ye and
               Yuji Zhang},
  title     = {Adverse event detection by integrating twitter data and {VAERS}},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {19:1--19:10},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-018-0184-y},
  doi       = {10.1186/s13326-018-0184-y},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/WangZYZ18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ZhaoZLC18,
  author    = {Mengyi Zhao and
               Songmao Zhang and
               Weizhuo Li and
               Guowei Chen},
  title     = {Matching biomedical ontologies based on formal concept analysis},
  journal   = {J. Biomed. Semant.},
  volume    = {9},
  number    = {1},
  pages     = {11:1--11:27},
  year      = {2018},
  url       = {https://doi.org/10.1186/s13326-018-0178-9},
  doi       = {10.1186/s13326-018-0178-9},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ZhaoZLC18.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/AmithT17,
  author    = {Muhammad Amith and
               Cui Tao},
  title     = {Modulated evaluation metrics for drug-based ontologies},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {17:1--17:8},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0124-2},
  doi       = {10.1186/s13326-017-0124-2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/AmithT17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BartonEDB17,
  author    = {Adrien Barton and
               Jean{-}Fran{\c{c}}ois Ethier and
               R{\'{e}}gis Duvauferrier and
               Anita Burgun},
  title     = {An ontological analysis of medical Bayesian indicators of performance},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {1:1--1:13},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-016-0099-4},
  doi       = {10.1186/s13326-016-0099-4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BartonEDB17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BasaldellaFTR17,
  author    = {Marco Basaldella and
               Lenz Furrer and
               Carlo Tasso and
               Fabio Rinaldi},
  title     = {Entity recognition in the biomedical domain using a hybrid approach},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {51:1--51:14},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0157-6},
  doi       = {10.1186/s13326-017-0157-6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BasaldellaFTR17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BlfgehWHL17,
  author    = {Aisha Blfgeh and
               Jennifer D. Warrender and
               Catharien M. U. Hilkens and
               Phillip Lord},
  title     = {A document-centric approach for developing the tolAPC ontology},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {54:1--54:9},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0159-4},
  doi       = {10.1186/s13326-017-0159-4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BlfgehWHL17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BokharaeianETCC17,
  author    = {Behrouz Bokharaeian and
               Alberto D{\'{\i}}az Esteban and
               Nasrin Taghizadeh and
               Hamidreza Chitsaz and
               Ramyar Chavoshinejad},
  title     = {SNPPhenA: a corpus for extracting ranked associations of single-nucleotide
               polymorphisms and phenotypes from literature},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {14:1--14:13},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0116-2},
  doi       = {10.1186/s13326-017-0116-2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BokharaeianETCC17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BoyceVHERDTLDHW17,
  author    = {Richard D. Boyce and
               Erica A. Voss and
               Vojtech Huser and
               Lee Evans and
               Christian G. Reich and
               Jon D. Duke and
               Nicholas P. Tatonetti and
               Tal Lorberbaum and
               Michel Dumontier and
               Manfred Hauben and
               Magnus Wallberg and
               Lili Peng and
               Sara Dempster and
               Yongqun He and
               Anthony G. Sena and
               Vassilis Koutkias and
               Pantelis Natsiavas and
               Patrick B. Ryan},
  title     = {Large-scale adverse effects related to treatment evidence standardization
               {(LAERTES):} an open scalable system for linking pharmacovigilance
               evidence sources with clinical data},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {11:1--11:15},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0115-3},
  doi       = {10.1186/s13326-017-0115-3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BoyceVHERDTLDHW17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BurekLH17,
  author    = {Patryk Burek and
               Frank Loebe and
               Heinrich Herre},
  title     = {Towards refactoring the Molecular Function Ontology with a {UML} profile
               for function modeling},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {48:1--48:11},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0152-y},
  doi       = {10.1186/s13326-017-0152-y},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BurekLH17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/DalleauMSRNC17,
  author    = {Kevin Dalleau and
               Yassine Marzougui and
               S{\'{e}}bastien Da Silva and
               Patrice Ringot and
               Ndeye Coumba Ndiaye and
               Adrien Coulet},
  title     = {Learning from biomedical linked data to suggest valid pharmacogenes},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {16:1--16:12},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0125-1},
  doi       = {10.1186/s13326-017-0125-1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/DalleauMSRNC17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/DelegerCLN17,
  author    = {Louise Del{\'{e}}ger and
               Leonardo Campillos and
               Anne{-}Laure Ligozat and
               Aur{\'{e}}lie N{\'{e}}v{\'{e}}ol},
  title     = {Design of an extensive information representation scheme for clinical
               narratives},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {37:1--37:18},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0135-z},
  doi       = {10.1186/s13326-017-0135-z},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/DelegerCLN17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/DhombresMFGLKCP17,
  author    = {Ferdinand Dhombres and
               Paul Maurice and
               St{\'{e}}phanie Friszer and
               Lucie Guilbaud and
               Nathalie Lelong and
               Babak Khoshnood and
               Jean Charlet and
               Nicolas Perrot and
               Eric Jauniaux and
               Davor Jurkovic and
               Jean{-}Marie Jouannic},
  title     = {Developing a knowledge base to support the annotation of ultrasound
               images of ectopic pregnancy},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {4:1--4:13},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0117-1},
  doi       = {10.1186/s13326-017-0117-1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/DhombresMFGLKCP17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Djokic-Petrovic17,
  author    = {Marija Djokic{-}Petrovic and
               Vladimir M. Cvjetkovic and
               Jeremy J. Yang and
               Marko Zivanovic and
               David J. Wild},
  title     = {{PIBAS} FedSPARQL: a web-based platform for integration and exploration
               of bioinformatics datasets},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {42:1--42:20},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0151-z},
  doi       = {10.1186/s13326-017-0151-z},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Djokic-Petrovic17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/DragisicILL17,
  author    = {Zlatan Dragisic and
               Valentina Ivanova and
               Huanyu Li and
               Patrick Lambrix},
  title     = {Experiences from the anatomy track in the ontology alignment evaluation
               initiative},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {56:1--56:28},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0166-5},
  doi       = {10.1186/s13326-017-0166-5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/DragisicILL17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Du0SLT17,
  author    = {Jingcheng Du and
               Jun Xu and
               Hsing{-}yi Song and
               Xiangyu Liu and
               Cui Tao},
  title     = {Optimization on machine learning based approaches for sentiment analysis
               on {HPV} vaccines related tweets},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {9:1--9:7},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0120-6},
  doi       = {10.1186/s13326-017-0120-6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Du0SLT17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Esteban-GilFB17,
  author    = {Angel Esteban{-}Gil and
               Jesualdo Tom{\'{a}}s Fern{\'{a}}ndez{-}Breis and
               Martin Boeker},
  title     = {Analysis and visualization of disease courses in a semantically-enabled
               cancer registry},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {46:1--46:16},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0154-9},
  doi       = {10.1186/s13326-017-0154-9},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Esteban-GilFB17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/GiraldoCLC17,
  author    = {Olga L. Giraldo and
               Alexander Garc{\'{\i}}a Castro and
               Federico L{\'{o}}pez and
               {\'{O}}scar Corcho},
  title     = {Using semantics for representing experimental protocols},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {52:1--52:15},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0160-y},
  doi       = {10.1186/s13326-017-0160-y},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/GiraldoCLC17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/GoncalvesTNTM17,
  author    = {Rafael S. Gon{\c{c}}alves and
               Samson W. Tu and
               Csongor I. Nyulas and
               Michael J. Tierney and
               Mark A. Musen},
  title     = {An ontology-driven tool for structured data acquisition using Web
               forms},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {26:1--26:14},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0133-1},
  doi       = {10.1186/s13326-017-0133-1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/GoncalvesTNTM17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/GrucaS17,
  author    = {Aleksandra Gruca and
               Marek Sikora},
  title     = {Data- and expert-driven rule induction and filtering framework for
               functional interpretation and description of gene sets},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {23:1--23:14},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0129-x},
  doi       = {10.1186/s13326-017-0129-x},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/GrucaS17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HarrowJSRWMAKMW17,
  author    = {Ian Harrow and
               Ernesto Jim{\'{e}}nez{-}Ruiz and
               Andrea Splendiani and
               Martin Romacker and
               Peter Woollard and
               Scott Markel and
               Yasmin Alam{-}Faruque and
               Martin Koch and
               James Malone and
               Arild Waaler},
  title     = {Matching disease and phenotype ontologies in the ontology alignment
               evaluation initiative},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {55:1--55:13},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0162-9},
  doi       = {10.1186/s13326-017-0162-9},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HarrowJSRWMAKMW17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HasnainMZSWZDR17,
  author    = {Ali Hasnain and
               Qaiser Mehmood and
               Syeda Sana e Zainab and
               Muhammad Saleem and
               Claude N. Warren Jr. and
               Durre Zehra and
               Stefan Decker and
               Dietrich Rebholz{-}Schuhmann},
  title     = {BioFed: federated query processing over life sciences linked open
               data},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {13:1--13:19},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0118-0},
  doi       = {10.1186/s13326-017-0118-0},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HasnainMZSWZDR17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HenryGFFDLFF17,
  author    = {Vincent Henry and
               Anne Goelzer and
               Arnaud Ferr{\'{e}} and
               Stephan Fischer and
               Marc Dinh and
               Valentin Loux and
               Christine Froidevaux and
               Vincent Fromion},
  title     = {The bacterial interlocked process ONtology (BiPON): a systemic multi-scale
               unified representation of biological processes in prokaryotes},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {53:1--53:16},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0165-6},
  doi       = {10.1186/s13326-017-0165-6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HenryGFFDLFF17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HoganHHABDEMVD17,
  author    = {William R. Hogan and
               Josh Hanna and
               Amanda Hicks and
               Samira Amirova and
               Baxter Bramblett and
               Matthew Diller and
               Rodel Enderez and
               Timothy Modzelewski and
               Mirela Vasconcelos and
               Chris Delcher},
  title     = {Therapeutic indications and other use-case-driven updates in the drug
               ontology: anti-malarials, anti-hypertensives, opioid analgesics, and
               a large term request},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {10:1--10:11},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0121-5},
  doi       = {10.1186/s13326-017-0121-5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HoganHHABDEMVD17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HuZLJSXWC17,
  author    = {Yang Hu and
               Lingling Zhao and
               Zhiyan Liu and
               Hong Ju and
               Hongbo Shi and
               Peigang Xu and
               Yadong Wang and
               Liang Cheng},
  title     = {DisSetSim: an online system for calculating similarity between disease
               sets},
  journal   = {J. Biomed. Semant.},
  volume    = {8-S},
  number    = {1},
  pages     = {19--25},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0140-2},
  doi       = {10.1186/s13326-017-0140-2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HuZLJSXWC17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HurOH17,
  author    = {Junguk Hur and
               Arzucan {\"{O}}zg{\"{u}}r and
               Yongqun He},
  title     = {Ontology-based literature mining of E. coli vaccine-associated gene
               interaction networks},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {12:1--12:10},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0122-4},
  doi       = {10.1186/s13326-017-0122-4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HurOH17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/JhaKMKMZRS17,
  author    = {Alokkumar Jha and
               Yasar Khan and
               Muntazir Mehdi and
               Md. Rezaul Karim and
               Qaiser Mehmood and
               Achille Zappa and
               Dietrich Rebholz{-}Schuhmann and
               Ratnesh Sahay},
  title     = {Towards precision medicine: discovering novel gynecological cancer
               biomarkers and pathways using linked data},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {40:1--40:16},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0146-9},
  doi       = {10.1186/s13326-017-0146-9},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/JhaKMKMZRS17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/JouhetMBT17,
  author    = {Vianney Jouhet and
               Fleur Mougin and
               B{\'{e}}r{\'{e}}nice Br{\'{e}}chat and
               Frantz Thiessard},
  title     = {Building a model for disease classification integration in oncology,
               an approach based on the national cancer institute thesaurus},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {6:1--6:12},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0114-4},
  doi       = {10.1186/s13326-017-0114-4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/JouhetMBT17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/JovanovicB17,
  author    = {Jelena Jovanovic and
               Ebrahim Bagheri},
  title     = {Semantic annotation in biomedicine: the current landscape},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {44:1--44:18},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0153-x},
  doi       = {10.1186/s13326-017-0153-x},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/JovanovicB17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/JovanovikT17,
  author    = {Milos Jovanovik and
               Dimitar Trajanov},
  title     = {Consolidating drug data on a global scale using Linked Data},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {3:1--3:24},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-016-0111-z},
  doi       = {10.1186/s13326-016-0111-z},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/JovanovikT17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/KafkasDM17,
  author    = {Senay Kafkas and
               Ian Dunham and
               Johanna R. McEntyre},
  title     = {Literature evidence in open targets - a target validation platform},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {20:1--20:9},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0131-3},
  doi       = {10.1186/s13326-017-0131-3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/KafkasDM17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/KhanSMHMRS17,
  author    = {Yasar Khan and
               Muhammad Saleem and
               Muntazir Mehdi and
               Aidan Hogan and
               Qaiser Mehmood and
               Dietrich Rebholz{-}Schuhmann and
               Ratnesh Sahay},
  title     = {{SAFE:} {SPARQL} Federation over {RDF} Data Cubes with Access Control},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {5:1--5:22},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0112-6},
  doi       = {10.1186/s13326-017-0112-6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/KhanSMHMRS17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/KhordadM17,
  author    = {Maryam Khordad and
               Robert E. Mercer},
  title     = {Identifying genotype-phenotype relationships in biomedical text},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {57:1--57:16},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0163-8},
  doi       = {10.1186/s13326-017-0163-8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/KhordadM17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/KozakiYMIO17,
  author    = {Kouji Kozaki and
               Yuki Yamagata and
               Riichiro Mizoguchi and
               Takeshi Imai and
               Kazuhiko Ohe},
  title     = {Disease Compass- a navigation system for disease knowledge based on
               ontology and linked data techniques},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {22:1--22:18},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0132-2},
  doi       = {10.1186/s13326-017-0132-2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/KozakiYMIO17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/KulmanovH17,
  author    = {Maxat Kulmanov and
               Robert Hoehndorf},
  title     = {Evaluating the effect of annotation size on measures of semantic similarity},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {7:1--7:10},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0119-z},
  doi       = {10.1186/s13326-017-0119-z},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/KulmanovH17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/LampaWKKVGS17,
  author    = {Samuel Lampa and
               Egon L. Willighagen and
               Pekka Kohonen and
               Ali King and
               Denny Vrandecic and
               Roland Grafstrom and
               Ola Spjuth},
  title     = {{RDFIO:} extending Semantic MediaWiki for interoperable biomedical
               data management},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {35:1--35:13},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0136-y},
  doi       = {10.1186/s13326-017-0136-y},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/LampaWKKVGS17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/LerouxML17,
  author    = {Hugo Leroux and
               Alejandro Metke{-}Jimenez and
               Michael John Lawley},
  title     = {Towards achieving semantic interoperability of clinical study data
               with {FHIR}},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {41:1--41:14},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0148-7},
  doi       = {10.1186/s13326-017-0148-7},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/LerouxML17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/LinMKTVFKNJGMUS17,
  author    = {Yu Lin and
               Saurabh Mehta and
               Hande K{\"{u}}{\c{c}}{\"{u}}k{-}McGinty and
               John Paul Turner and
               Dusica Vidovic and
               Michele Forlin and
               Amar Koleti and
               Dac{-}Trung Nguyen and
               Lars Juhl Jensen and
               Rajarshi Guha and
               Stephen L. Mathias and
               Oleg Ursu and
               Vasileios Stathias and
               Jianbin Duan and
               Nooshin Nabizadeh and
               Caty Chung and
               Christopher Mader and
               Ubbo Visser and
               Jeremy J. Yang and
               Cristian Bologa and
               Tudor I. Oprea and
               Stephan C. Sch{\"{u}}rer},
  title     = {Drug target ontology to classify and integrate drug discovery data},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {50:1--50:16},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0161-x},
  doi       = {10.1186/s13326-017-0161-x},
  timestamp = {Sat, 05 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/LinMKTVFKNJGMUS17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/MaoL17,
  author    = {Yuqing Mao and
               Zhiyong Lu},
  title     = {MeSH Now: automatic MeSH indexing at PubMed scale via learning to
               rank},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {15:1--15:9},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0123-3},
  doi       = {10.1186/s13326-017-0123-3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/MaoL17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/MazoSCTA17,
  author    = {Claudia Mazo and
               Liliana Salazar and
               {\'{O}}scar Corcho and
               Mar{\'{\i}}a P. Trujillo and
               Enrique Alegre},
  title     = {A histological ontology of the human cardiovascular system},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {47:1--47:15},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0158-5},
  doi       = {10.1186/s13326-017-0158-5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/MazoSCTA17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/MinMIAW17,
  author    = {Hua Min and
               Hedyeh Mobahi and
               Katherine Irvin and
               Sanja Avramovic and
               Janusz Wojtusiak},
  title     = {Predicting activities of daily living for cancer patients using an
               ontology-guided machine learning methodology},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {39:1--39:8},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0149-6},
  doi       = {10.1186/s13326-017-0149-6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/MinMIAW17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/MorkAD17,
  author    = {James G. Mork and
               Alan R. Aronson and
               Dina Demner{-}Fushman},
  title     = {12 years on - Is the {NLM} medical text indexer still useful and relevant?},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {8:1--8:10},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0113-5},
  doi       = {10.1186/s13326-017-0113-5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/MorkAD17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Osumi-Sutherland17,
  author    = {David Osumi{-}Sutherland and
               M{\'{e}}lanie Courtot and
               James P. Balhoff and
               Christopher J. Mungall},
  title     = {Dead simple {OWL} design patterns},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {18:1--18:7},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0126-0},
  doi       = {10.1186/s13326-017-0126-0},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Osumi-Sutherland17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/PapanikolaouTLM17,
  author    = {Yannis Papanikolaou and
               Grigorios Tsoumakas and
               Manos Laliotis and
               Nikos Markantonatos and
               Ioannis P. Vlahavas},
  title     = {Large-scale online semantic indexing of biomedical articles via an
               ensemble of multi-label classification models},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {43:1--43:13},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0150-0},
  doi       = {10.1186/s13326-017-0150-0},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/PapanikolaouTLM17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ParkHS17,
  author    = {Jisoo Park and
               Benjamin J. Hescott and
               Donna K. Slonim},
  title     = {Towards a more molecular taxonomy of disease},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {25:1--25:11},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0134-0},
  doi       = {10.1186/s13326-017-0134-0},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ParkHS17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/PengLS17,
  author    = {Jiajie Peng and
               Qianqian Li and
               Xuequn Shang},
  title     = {Investigations on factors influencing HPO-based semantic similarity
               calculation},
  journal   = {J. Biomed. Semant.},
  volume    = {8-S},
  number    = {1},
  pages     = {61--69},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0144-y},
  doi       = {10.1186/s13326-017-0144-y},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/PengLS17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/PersoneniBDDSC17,
  author    = {Gabin Personeni and
               Emmanuel Bresso and
               Marie{-}Dominique Devignes and
               Michel Dumontier and
               Malika Sma{\"{\i}}l{-}Tabbone and
               Adrien Coulet},
  title     = {Discovering associations between adverse drug events using pattern
               structures and ontologies},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {29:1--29:13},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0137-x},
  doi       = {10.1186/s13326-017-0137-x},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/PersoneniBDDSC17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/PriyatnaAPC17,
  author    = {Freddy Priyatna and
               Ra{\'{u}}l Alonso{-}Calvo and
               Sergio Paraiso{-}Medina and
               {\'{O}}scar Corcho},
  title     = {Querying clinical data in {HL7} {RIM} based relational model with
               morph-RDB},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {49:1--49:12},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0155-8},
  doi       = {10.1186/s13326-017-0155-8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/PriyatnaAPC17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Rodriguez-Garcia17,
  author    = {Miguel {\'{A}}ngel Rodr{\'{\i}}guez{-}Garc{\'{\i}}a and
               Georgios V. Gkoutos and
               Paul N. Schofield and
               Robert Hoehndorf},
  title     = {Integrating phenotype ontologies with PhenomeNET},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {58:1--58:11},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0167-4},
  doi       = {10.1186/s13326-017-0167-4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Rodriguez-Garcia17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/RomeroJOGPM17,
  author    = {Marcos Mart{\'{\i}}nez Romero and
               Cl{\'{e}}ment Jonquet and
               Martin J. O'Connor and
               John Graybeal and
               Alejandro Pazos and
               Mark A. Musen},
  title     = {{NCBO} Ontology Recommender 2.0: an enhanced approach for biomedical
               ontology recommendation},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {21:1--21:22},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0128-y},
  doi       = {10.1186/s13326-017-0128-y},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/RomeroJOGPM17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/RuanWSWZYG17,
  author    = {Tong Ruan and
               Mengjie Wang and
               Jian Sun and
               Ting Wang and
               Lu Zeng and
               Yichao Yin and
               Ju Gao},
  title     = {An automatic approach for constructing a knowledge base of symptoms
               in Chinese},
  journal   = {J. Biomed. Semant.},
  volume    = {8-S},
  number    = {1},
  pages     = {71--79},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0145-x},
  doi       = {10.1186/s13326-017-0145-x},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/RuanWSWZYG17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Segura-BedmarM17,
  author    = {Isabel Segura{-}Bedmar and
               Paloma Mart{\'{\i}}nez},
  title     = {Simplifying drug package leaflets written in Spanish by using word
               embedding},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {45:1--45:9},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0156-7},
  doi       = {10.1186/s13326-017-0156-7},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Segura-BedmarM17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SharmaSTWCJ17,
  author    = {Deepak K. Sharma and
               Harold R. Solbrig and
               Cui Tao and
               Chunhua Weng and
               Christopher G. Chute and
               Guoqian Jiang},
  title     = {Building a semantic web-based metadata repository for facilitating
               detailed clinical modeling in cancer genome studies},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {19:1--19:11},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0130-4},
  doi       = {10.1186/s13326-017-0130-4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SharmaSTWCJ17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Sharp17,
  author    = {Mark E. Sharp},
  title     = {Toward a comprehensive drug ontology: extraction of drug-indication
               relations from diverse information sources},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {2:1--2:10},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-016-0110-0},
  doi       = {10.1186/s13326-016-0110-0},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Sharp17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SilvaJFS17,
  author    = {Filipe Santana da Silva and
               Ludger Jansen and
               Fred Freitas and
               Stefan Schulz},
  title     = {Ontological interpretation of biomedical database content},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {24:1--24:14},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0127-z},
  doi       = {10.1186/s13326-017-0127-z},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SilvaJFS17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/TengGLTC17,
  author    = {Zhixia Teng and
               Maozu Guo and
               Xiaoyan Liu and
               Zhen Tian and
               Kai Che},
  title     = {Revealing protein functions based on relationships of interacting
               proteins and {GO} terms},
  journal   = {J. Biomed. Semant.},
  volume    = {8-S},
  number    = {1},
  pages     = {9--17},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0139-8},
  doi       = {10.1186/s13326-017-0139-8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/TengGLTC17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/TianGWXWZ17,
  author    = {Zhen Tian and
               Maozu Guo and
               Chunyu Wang and
               Linlin Xing and
               Lei Wang and
               Yin Zhang},
  title     = {Constructing an integrated gene similarity network for the identification
               of disease genes},
  journal   = {J. Biomed. Semant.},
  volume    = {8-S},
  number    = {1},
  pages     = {27--41},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0141-1},
  doi       = {10.1186/s13326-017-0141-1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/TianGWXWZ17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/UciteliNTSSFKSS17,
  author    = {Alexandr Uciteli and
               Juliane Neumann and
               Kais Tahar and
               Kutaiba Saleh and
               Stephan Stucke and
               Sebastian Faulbr{\"{u}}ck{-}R{\"{o}}hr and
               Andr{\'{e}} Kaeding and
               Martin Specht and
               Tobias Schmidt and
               Thomas Neumuth and
               Andreas Besting and
               Dominik Stegemann and
               Frank Portheine and
               Heinrich Herre},
  title     = {Ontology-based specification, identification and analysis of perioperative
               risks},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {36:1--36:14},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0147-8},
  doi       = {10.1186/s13326-017-0147-8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/UciteliNTSSFKSS17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/XuPW17,
  author    = {Dongliang Xu and
               Jingchang Pan and
               Bailing Wang},
  title     = {Multiple kernels learning-based biological entity relationship extraction
               method},
  journal   = {J. Biomed. Semant.},
  volume    = {8},
  number    = {1},
  pages     = {38:1--38:8},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0138-9},
  doi       = {10.1186/s13326-017-0138-9},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/XuPW17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ZhangLLF17,
  author    = {Chengwei Zhang and
               Xiaohong Li and
               Shuxin Li and
               Zhiyong Feng},
  title     = {Dynamically analyzing cell interactions in biological environments
               using multiagent social learning framework},
  journal   = {J. Biomed. Semant.},
  volume    = {8-S},
  number    = {1},
  pages     = {43--52},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0142-0},
  doi       = {10.1186/s13326-017-0142-0},
  timestamp = {Thu, 03 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ZhangLLF17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ZhaoZZRXLCH17,
  author    = {Tianyi Zhao and
               Ningyi Zhang and
               Ying Zhang and
               Jun Ren and
               Peigang Xu and
               Zhiyan Liu and
               Liang Cheng and
               Yang Hu},
  title     = {A novel method to identify pre-microRNA in various species knowledge
               base on various species},
  journal   = {J. Biomed. Semant.},
  volume    = {8-S},
  number    = {1},
  pages     = {53--59},
  year      = {2017},
  url       = {https://doi.org/10.1186/s13326-017-0143-z},
  doi       = {10.1186/s13326-017-0143-z},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ZhaoZZRXLCH17.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/AbachaRMPS16,
  author    = {Asma Ben Abacha and
               J{\'{u}}lio Cesar dos Reis and
               Yassine Mrabet and
               C{\'{e}}dric Pruski and
               Marcos Da Silveira},
  title     = {Towards natural language question generation for the validation of
               ontologies and mappings},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {48},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0089-6},
  doi       = {10.1186/s13326-016-0089-6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/AbachaRMPS16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/AdebayoMTOBBBP16,
  author    = {Solomon Adebayo and
               Kenneth McLeod and
               Ilinca Tudose and
               David Osumi{-}Sutherland and
               Tony Burdett and
               Richard A. Baldock and
               Albert Burger and
               Helen E. Parkinson},
  title     = {PhenoImageShare: an image annotation and query infrastructure},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {35},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0072-2},
  doi       = {10.1186/s13326-016-0072-2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/AdebayoMTOBBBP16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/AhltorpSKHRA16,
  author    = {Magnus Ahltorp and
               Maria Skeppstedt and
               Shiho Kitajima and
               Aron Henriksson and
               Rafal Rzepka and
               Kenji Araki},
  title     = {Expansion of medical vocabularies using distributional semantics on
               Japanese patient blogs},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {58},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0093-x},
  doi       = {10.1186/s13326-016-0093-x},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/AhltorpSKHRA16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/AlamriS16,
  author    = {Abdulaziz Alamri and
               Mark Stevenson},
  title     = {A corpus of potentially contradictory research claims from cardiovascular
               research abstracts},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {36},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0083-z},
  doi       = {10.1186/s13326-016-0083-z},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/AlamriS16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BaekP16,
  author    = {Seung{-}Cheol Baek and
               Jong C. Park},
  title     = {Making adjustments to event annotations for improved biological event
               extraction},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {55},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0094-9},
  doi       = {10.1186/s13326-016-0094-9},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BaekP16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BamparopoulosKB16,
  author    = {Giorgos Bamparopoulos and
               Evdokimos I. Konstantinidis and
               Charalampos Bratsas and
               Panagiotis D. Bamidis},
  title     = {Towards exergaming commons: composing the exergame ontology for publishing
               open game data},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {4},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0046-4},
  doi       = {10.1186/s13326-016-0046-4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BamparopoulosKB16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BamparopoulosKB16a,
  author    = {Giorgos Bamparopoulos and
               Evdokimos I. Konstantinidis and
               Charalampos Bratsas and
               Panagiotis D. Bamidis},
  title     = {Erratum to: Towards exergaming commons: composing the exergame ontology
               for publishing open game data},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {31},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0082-0},
  doi       = {10.1186/s13326-016-0082-0},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BamparopoulosKB16a.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BastosSCC16,
  author    = {Hugo P. Bastos and
               Lisete Sousa and
               Luka A. Clarke and
               Francisco M. Couto},
  title     = {Functional coherence metrics in protein families},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {41},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0076-y},
  doi       = {10.1186/s13326-016-0076-y},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BastosSCC16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BelloE16,
  author    = {Susan M. Bello and
               Janan T. Eppig},
  title     = {Inferring gene-to-phenotype and gene-to-disease relationships at Mouse
               Genome Informatics: challenges and solutions},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {14},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0054-4},
  doi       = {10.1186/s13326-016-0054-4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BelloE16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BergesABGI16,
  author    = {Idoia Berges and
               David Ant{\'{o}}n and
               Jes{\'{u}}s Berm{\'{u}}dez and
               Alfredo Go{\~{n}}i and
               Arantza Illarramendi},
  title     = {TrhOnt: building an ontology to assist rehabilitation processes},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {60},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0104-y},
  doi       = {10.1186/s13326-016-0104-y},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BergesABGI16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BlankCMW16,
  author    = {Carrine E. Blank and
               Hong Cui and
               Lisa R. Moore and
               Ramona L. Walls},
  title     = {MicrO: an ontology of phenotypic and metabolic characters, assays,
               and culture media found in prokaryotic taxonomic descriptions},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {18},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0060-6},
  doi       = {10.1186/s13326-016-0060-6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BlankCMW16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BoekerFBS16,
  author    = {Martin Boeker and
               F{\'{a}}bio Fran{\c{c}}a and
               Peter Bronsert and
               Stefan Schulz},
  title     = {{TNM-O:} ontology support for staging of malignant tumours},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {64:1--64:11},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0106-9},
  doi       = {10.1186/s13326-016-0106-9},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BoekerFBS16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BollemanMSBDBBH16,
  author    = {Jerven T. Bolleman and
               Christopher J. Mungall and
               Francesco Strozzi and
               Joachim Baran and
               Michel Dumontier and
               Raoul Jean Pierre Bonnal and
               Robert M. Buels and
               Robert Hoehndorf and
               Takatomo Fujisawa and
               Toshiaki Katayama and
               Peter J. A. Cock},
  title     = {{FALDO:} a semantic standard for describing the location of nucleotide
               and protein feature annotation},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {39},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0067-z},
  doi       = {10.1186/s13326-016-0067-z},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BollemanMSBDBBH16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BrochhausenZBWM16,
  author    = {Mathias Brochhausen and
               Jie Zheng and
               David L. Birtwell and
               Heather Williams and
               Anna Maria Masci and
               Helena Judge Ellis and
               Christian J. Stoeckert Jr.},
  title     = {OBIB-a novel ontology for biobanking},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {23},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0068-y},
  doi       = {10.1186/s13326-016-0068-y},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BrochhausenZBWM16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ButtigiegPLSWM16,
  author    = {Pier Luigi Buttigieg and
               Evangelos Pafilis and
               Suzanna E. Lewis and
               Mark P. Schildhauer and
               Ramona L. Walls and
               Christopher J. Mungall},
  title     = {The environment ontology in 2016: bridging domains with increased
               scope, semantic density, and interoperation},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {57},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0097-6},
  doi       = {10.1186/s13326-016-0097-6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ButtigiegPLSWM16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/CasteleiroKS16,
  author    = {Mercedes Arg{\"{u}}ello Casteleiro and
               Julie Klein and
               Robert Stevens},
  title     = {The Proteasix Ontology},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {33},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0078-9},
  doi       = {10.1186/s13326-016-0078-9},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/CasteleiroKS16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/CheungKRSRSAGGA16,
  author    = {Kei{-}Hoi Cheung and
               Shivakumar Keerthikumar and
               Paola Roncaglia and
               Sai Lakshmi Subramanian and
               Matthew E. Roth and
               Monisha Samuel and
               Sushma Anand and
               Lahiru Gangoda and
               Stephen Gould and
               Roger Alexander and
               David Galas and
               Mark B. Gerstein and
               Andrew F. Hill and
               Robert R. Kitchen and
               Jan L{\"{o}}tvall and
               Tushar Patel},
  title     = {Extending gene ontology in the context of extracellular {RNA} and
               vesicle communication},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {19},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0061-5},
  doi       = {10.1186/s13326-016-0061-5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/CheungKRSRSAGGA16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ConwayKFSCMCJ16,
  author    = {Mike Conway and
               Artem Khojoyan and
               Fariba Fana and
               William Scuba and
               Melissa Castine and
               Danielle L. Mowery and
               Wendy W. Chapman and
               Simon Jupp},
  title     = {Developing a web-based {SKOS} editor},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {5},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-015-0043-z},
  doi       = {10.1186/s13326-015-0043-z},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ConwayKFSCMCJ16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/DhombresB16,
  author    = {Ferdinand Dhombres and
               Olivier Bodenreider},
  title     = {Interoperability between phenotypes in research and healthcare terminologies
               - Investigating partial mappings between {HPO} and {SNOMED} {CT}},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {3},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0047-3},
  doi       = {10.1186/s13326-016-0047-3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/DhombresB16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/DiehlMBBDDHORSS16,
  author    = {Alexander D. Diehl and
               Terrence F. Meehan and
               Yvonne M. Bradford and
               Matthew H. Brush and
               Wasila M. Dahdul and
               David S. Dougall and
               Yongqun He and
               David Osumi{-}Sutherland and
               Alan Ruttenberg and
               Sirarat Sarntivijai and
               Ceri E. Van Slyke and
               Nicole A. Vasilevsky and
               Melissa A. Haendel and
               Judith A. Blake and
               Christopher J. Mungall},
  title     = {The Cell Ontology 2016: enhanced content, modularization, and ontology
               interoperability},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {44},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0088-7},
  doi       = {10.1186/s13326-016-0088-7},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/DiehlMBBDDHORSS16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/DrameMD16,
  author    = {Khadim Dram{\'{e}} and
               Fleur Mougin and
               Gayo Diallo},
  title     = {Large scale biomedical texts classification: a kNN and an ESA-based
               approaches},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {40},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0073-1},
  doi       = {10.1186/s13326-016-0073-1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/DrameMD16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/DuCCT16,
  author    = {Jingcheng Du and
               Yi Cai and
               Yong Chen and
               Cui Tao},
  title     = {Trivalent influenza vaccine adverse symptoms analysis based on MedDRA
               terminology using {VAERS} data in 2011},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {13},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0056-2},
  doi       = {10.1186/s13326-016-0056-2},
  timestamp = {Wed, 09 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/DuCCT16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Duque-RamosQIFS16,
  author    = {Astrid Duque{-}Ramos and
               Manuel Quesada{-}Mart{\'{\i}}nez and
               Miguela Iniesta{-}Moreno and
               Jesualdo Tom{\'{a}}s Fern{\'{a}}ndez{-}Breis and
               Robert Stevens},
  title     = {Supporting the analysis of ontology evolution processes through the
               combination of static and dynamic scaling functions in OQuaRE},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {63},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0091-z},
  doi       = {10.1186/s13326-016-0091-z},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Duque-RamosQIFS16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Fernandez-Breis16,
  author    = {Jesualdo Tom{\'{a}}s Fern{\'{a}}ndez{-}Breis and
               Hirokazu Chiba and
               Mar{\'{\i}}a Del Carmen Legaz{-}Garc{\'{\i}}a and
               Ikuo Uchiyama},
  title     = {The Orthology Ontology: development and applications},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {34},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0077-x},
  doi       = {10.1186/s13326-016-0077-x},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Fernandez-Breis16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/FisherHBDKGSS16,
  author    = {Hannah M. Fisher and
               Robert Hoehndorf and
               Bruno S. Bazelato and
               Soheil S. Dadras and
               Lloyd E. King and
               Georgios V. Gkoutos and
               John P. Sundberg and
               Paul N. Schofield},
  title     = {DermO; an ontology for the description of dermatologic disease},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {38},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0085-x},
  doi       = {10.1186/s13326-016-0085-x},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/FisherHBDKGSS16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/FunkCHV16,
  author    = {Christopher S. Funk and
               K. Bretonnel Cohen and
               Lawrence E. Hunter and
               Karin M. Verspoor},
  title     = {Gene Ontology synonym generation rules lead to increased performance
               in biomedical concept recognition},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {52},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0096-7},
  doi       = {10.1186/s13326-016-0096-7},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/FunkCHV16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/GarciaGM16,
  author    = {Mar{\'{\i}}a del Mar Rold{\'{a}}n Garc{\'{\i}}a and
               Mar{\'{\i}}a Jes{\'{u}}s Garc{\'{\i}}a{-}Godoy and
               Jos{\'{e}} Francisco Aldana Montes},
  title     = {Dione: An {OWL} representation of {ICD-10-CM} for classifying patients'
               diseases},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {62},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0105-x},
  doi       = {10.1186/s13326-016-0105-x},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/GarciaGM16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/GuoRHLXZRJZH16,
  author    = {Abra Guo and
               Rebecca Racz and
               Junguk Hur and
               Yu Lin and
               Zuoshuang Xiang and
               Lili Zhao and
               Jordan Rinder and
               Guoqian Jiang and
               Qian Zhu and
               Yongqun He},
  title     = {Ontology-based collection, representation and analysis of drug-associated
               neuropathy adverse events},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {29},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0069-x},
  doi       = {10.1186/s13326-016-0069-x},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/GuoRHLXZRJZH16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/GuptaRTWSV16,
  author    = {Samir Gupta and
               Karen E. Ross and
               Catalina O. Tudor and
               Cathy H. Wu and
               Carl J. Schmidt and
               K. Vijay{-}Shanker},
  title     = {miRiaD: {A} Text Mining Tool for Detecting Associations of microRNAs
               with Diseases},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {9},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-015-0044-y},
  doi       = {10.1186/s13326-015-0044-y},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/GuptaRTWSV16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HanKK16,
  author    = {Xu Han and
               Jung{-}jae Kim and
               Chee Keong Kwoh},
  title     = {Active learning for ontological event extraction incorporating named
               entity recognition and unknown word handling},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {22},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0059-z},
  doi       = {10.1186/s13326-016-0059-z},
  timestamp = {Mon, 31 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HanKK16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HannaBH16,
  author    = {Josh Hanna and
               Jiang Bian and
               William R. Hogan},
  title     = {An accurate and precise representation of drug ingredients},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {7},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0048-2},
  doi       = {10.1186/s13326-016-0048-2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HannaBH16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HicksHWBH16,
  author    = {Amanda Hicks and
               Josh Hanna and
               Daniel Welch and
               Mathias Brochhausen and
               William R. Hogan},
  title     = {The ontology of medically related social entities: recent developments},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {47},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0087-8},
  doi       = {10.1186/s13326-016-0087-8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HicksHWBH16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HoehndorfAGGGHK16,
  author    = {Robert Hoehndorf and
               Mona Alshahrani and
               Georgios V. Gkoutos and
               George Gosline and
               Quentin Groom and
               Thomas Hamann and
               Jens Kattge and
               Sylvia Mota de Oliveira and
               Marco Schmidt and
               Soraya Sierra and
               Erik Smets and
               Rutger A. Vos and
               Claus Weiland},
  title     = {The flora phenotype ontology {(FLOPO):} tool for integrating morphological
               traits and phenotypes of vascular plants},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {65:1--65:11},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0107-8},
  doi       = {10.1186/s13326-016-0107-8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HoehndorfAGGGHK16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HoganC16,
  author    = {William R. Hogan and
               Werner Ceusters},
  title     = {Diagnosis, misdiagnosis, lucky guess, hearsay, and more: an ontological
               analysis},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {54},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0098-5},
  doi       = {10.1186/s13326-016-0098-5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HoganC16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HoganWBLBMDH16,
  author    = {William R. Hogan and
               Michael M. Wagner and
               Mathias Brochhausen and
               John Levander and
               Shawn T. Brown and
               Nicholas Millett and
               Jay DePasse and
               Josh Hanna},
  title     = {The Apollo Structured Vocabulary: an {OWL2} ontology of phenomena
               in infectious disease epidemiology and population biology for use
               in epidemic simulation},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {50},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0092-y},
  doi       = {10.1186/s13326-016-0092-y},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HoganWBLBMDH16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HuangESBDHNRHZJ16,
  author    = {Jingshan Huang and
               Karen Eilbeck and
               Barry Smith and
               Judith A. Blake and
               Dejing Dou and
               Weili Huang and
               Darren A. Natale and
               Alan Ruttenberg and
               Jun Huan and
               Michael T. Zimmermann and
               Guoqian Jiang and
               Yu Lin and
               Bin Wu and
               Harrison J. Strachan and
               Yongqun He and
               Shaojie Zhang and
               Xiaowei Wang and
               Zixing Liu and
               Glen M. Borchert and
               Ming Tan},
  title     = {The Non-Coding {RNA} Ontology {(NCRO):} a comprehensive resource for
               the unification of non-coding {RNA} biology},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {24},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0066-0},
  doi       = {10.1186/s13326-016-0066-0},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HuangESBDHNRHZJ16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HuangGSDHSBENLW16,
  author    = {Jingshan Huang and
               Fernando Gutierrez and
               Harrison J. Strachan and
               Dejing Dou and
               Weili Huang and
               Barry Smith and
               Judith A. Blake and
               Karen Eilbeck and
               Darren A. Natale and
               Yu Lin and
               Bin Wu and
               Nisansa de Silva and
               Xiaowei Wang and
               Zixing Liu and
               Glen M. Borchert and
               Ming Tan and
               Alan Ruttenberg},
  title     = {OmniSearch: a semantic search system based on the Ontology for MIcroRNA
               Target {(OMIT)} for microRNA-target gene interaction data},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {25},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0064-2},
  doi       = {10.1186/s13326-016-0064-2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HuangGSDHSBENLW16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/IyappanKRHS16,
  author    = {Anandhi Iyappan and
               Shweta Bagewadi Kawalia and
               Tamara Raschka and
               Martin Hofmann{-}Apitius and
               Philipp Senger},
  title     = {NeuroRDF: semantic integration of highly curated data to prioritize
               biomarker candidates in Alzheimer's disease},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {45},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0079-8},
  doi       = {10.1186/s13326-016-0079-8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/IyappanKRHS16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/JiangEESC16,
  author    = {Guoqian Jiang and
               Julie Evans and
               Cory M. Endle and
               Harold R. Solbrig and
               Christopher G. Chute},
  title     = {Using Semantic Web technologies for the generation of domain-specific
               templates to support clinical study metadata standards},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {10},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0053-5},
  doi       = {10.1186/s13326-016-0053-5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/JiangEESC16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/JuppBWSPM16,
  author    = {Simon Jupp and
               Tony Burdett and
               Danielle Welter and
               Sirarat Sarntivijai and
               Helen E. Parkinson and
               James Malone},
  title     = {Webulous and the Webulous Google Add-On - a web service and application
               for ontology building from templates},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {17},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0055-3},
  doi       = {10.1186/s13326-016-0055-3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/JuppBWSPM16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/JuppMBHWEPR16,
  author    = {Simon Jupp and
               James Malone and
               Tony Burdett and
               Jean{-}Karim H{\'{e}}rich{\'{e}} and
               Eleanor Williams and
               Jan Ellenberg and
               Helen E. Parkinson and
               Gabriella Rustici},
  title     = {The cellular microscopy phenotype ontology},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {28},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0074-0},
  doi       = {10.1186/s13326-016-0074-0},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/JuppMBHWEPR16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Legaz-GarciaMTF16,
  author    = {Mar{\'{\i}}a Del Carmen Legaz{-}Garc{\'{\i}}a and
               Jos{\'{e}} Antonio Mi{\~{n}}arro{-}Gim{\'{e}}nez and
               Marcos Men{\'{a}}rguez Tortosa and
               Jesualdo Tom{\'{a}}s Fern{\'{a}}ndez{-}Breis},
  title     = {Generation of open biomedical datasets through ontology-driven transformation
               and integration processes},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {32},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0075-z},
  doi       = {10.1186/s13326-016-0075-z},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Legaz-GarciaMTF16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/LeungD16,
  author    = {Tiffany I. Leung and
               Michel Dumontier},
  title     = {Overlap in drug-disease associations between clinical practice guidelines
               and drug structured product label indications},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {37},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0081-1},
  doi       = {10.1186/s13326-016-0081-1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/LeungD16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/LinZH16,
  author    = {Yu Lin and
               Jie Zheng and
               Yongqun He},
  title     = {{VICO:} Ontology-based representation and integrative analysis of
               Vaccination Informed Consent forms},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {20},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0062-4},
  doi       = {10.1186/s13326-016-0062-4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/LinZH16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Lopez-GarciaS16,
  author    = {Pablo L{\'{o}}pez{-}Garc{\'{\i}}a and
               Stefan Schulz},
  title     = {Can {SNOMED} {CT} be squeezed without losing its shape?},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {56},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0101-1},
  doi       = {10.1186/s13326-016-0101-1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Lopez-GarciaS16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/MehryaryKHG16,
  author    = {Farrokh Mehryary and
               Suwisa Kaewphan and
               Kai Hakala and
               Filip Ginter},
  title     = {Filtering large-scale event collections using a combination of supervised
               and unsupervised learning for event trigger classification},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {27},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0070-4},
  doi       = {10.1186/s13326-016-0070-4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/MehryaryKHG16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/MoweryCCSMKC16,
  author    = {Danielle L. Mowery and
               Brian E. Chapman and
               Mike Conway and
               Brett R. South and
               Erin Madden and
               Salomeh Keyhani and
               Wendy W. Chapman},
  title     = {Extracting a stroke phenotype risk factor from Veteran Health Administration
               clinical reports: an information content analysis},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {26},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0065-1},
  doi       = {10.1186/s13326-016-0065-1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/MoweryCCSMKC16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/MowerySCLPSSMVE16,
  author    = {Danielle L. Mowery and
               Brett R. South and
               Lee M. Christensen and
               Jianwei Leng and
               Laura{-}Maria Peltonen and
               Sanna Salanter{\"{a}} and
               Hanna Suominen and
               David Mart{\'{\i}}nez and
               Sumithra Velupillai and
               No{\'{e}}mie Elhadad and
               Guergana Savova and
               Sameer Pradhan and
               Wendy W. Chapman},
  title     = {Normalizing acronyms and abbreviations to aid patient understanding
               of clinical texts: ShARe/CLEF eHealth Challenge 2013, Task 2},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {43},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0084-y},
  doi       = {10.1186/s13326-016-0084-y},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/MowerySCLPSSMVE16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Mutowo-Meullenet16,
  author    = {Prudence Mutowo{-}Meullenet and
               A. Patr{\'{\i}}cia Bento and
               Nathan Dedman and
               Anna Gaulton and
               Anne Hersey and
               Jane Lomax and
               John P. Overington},
  title     = {A drug target slim: using gene ontology and gene ontology annotations
               to navigate protein-ligand target space in ChEMBL},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {59},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0102-0},
  doi       = {10.1186/s13326-016-0102-0},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Mutowo-Meullenet16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/OellrichMPSWK16,
  author    = {Anika Oellrich and
               Terrence F. Meehan and
               Helen E. Parkinson and
               Sirarat Sarntivijai and
               Jacqueline K. White and
               Natasha A. Karp},
  title     = {Reporting phenotypes in mouse models when considering body size as
               a potential confounder},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {2},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0050-8},
  doi       = {10.1186/s13326-016-0050-8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/OellrichMPSWK16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/PozzaBOCM16,
  author    = {Giandomenico Pozza and
               Stefano Borgo and
               Alessandro Oltramari and
               Laura Contalbrigo and
               Stefano Marangon},
  title     = {Information and organization in public health institutes: an ontology-based
               modeling of the entities in the reception-analysis-report phases},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {51},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0095-8},
  doi       = {10.1186/s13326-016-0095-8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/PozzaBOCM16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/RayCJADD16,
  author    = {Patrick L. Ray and
               Alexander P. Cox and
               Mark Jensen and
               Travis Allen and
               William D. Duncan and
               Alexander D. Diehl},
  title     = {Representing vision and blindness},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {15},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0058-0},
  doi       = {10.1186/s13326-016-0058-0},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/RayCJADD16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ReadDNRSW16,
  author    = {Warren J. Read and
               George Demetriou and
               Goran Nenadic and
               Noel Ruddock and
               Robert Stevens and
               Jerry Winter},
  title     = {The BioHub Knowledge Base: Ontology and Repository for Sustainable
               Biosourcing},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {30},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0071-3},
  doi       = {10.1186/s13326-016-0071-3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ReadDNRSW16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/RybinskiM16,
  author    = {Maciej Rybinski and
               Jos{\'{e}} Francisco Aldana Montes},
  title     = {tESA: a distributional measure for calculating semantic relatedness},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {67:1--67:14},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0109-6},
  doi       = {10.1186/s13326-016-0109-6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/RybinskiM16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SarntivijaiVJSB16,
  author    = {Sirarat Sarntivijai and
               Drashtti Vasant and
               Simon Jupp and
               Gary Saunders and
               A. Patr{\'{\i}}cia Bento and
               Daniel Gonzalez and
               Joanna Betts and
               Samiul Hasan and
               Gautier Koscielny and
               Ian Dunham and
               Helen E. Parkinson and
               James Malone},
  title     = {Linking rare and common disease: mapping clinical disease-phenotypes
               to ontologies in therapeutic target validation},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {8},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0051-7},
  doi       = {10.1186/s13326-016-0051-7},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SarntivijaiVJSB16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ScharmWMW16,
  author    = {Martin Scharm and
               Dagmar Waltemath and
               Pedro Mendes and
               Olaf Wolkenhauer},
  title     = {{COMODI:} an ontology to characterise differences in versions of computational
               models in biology},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {46},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0080-2},
  doi       = {10.1186/s13326-016-0080-2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ScharmWMW16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ScubaTMTLDC16,
  author    = {William Scuba and
               Melissa Tharp and
               Danielle L. Mowery and
               Eugene Tseytlin and
               Yang Liu and
               Frank A. Drews and
               Wendy W. Chapman},
  title     = {Knowledge Author: facilitating user-driven, domain content development
               to support clinical information extraction},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {42},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0086-9},
  doi       = {10.1186/s13326-016-0086-9},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ScubaTMTLDC16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SlaterGSH16,
  author    = {Luke T. Slater and
               Georgios V. Gkoutos and
               Paul N. Schofield and
               Robert Hoehndorf},
  title     = {Using AberOWL for fast and scalable reasoning over BioPortal ontologies},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {49},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0090-0},
  doi       = {10.1186/s13326-016-0090-0},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SlaterGSH16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SojicTCS16,
  author    = {Aleksandra Sojic and
               Walter Terkaj and
               Giorgia Contini and
               Marco Sacco},
  title     = {Modularising ontology and designing inference patterns to personalise
               health condition assessment: the case of obesity},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {12},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0049-1},
  doi       = {10.1186/s13326-016-0049-1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SojicTCS16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/TaoHA16,
  author    = {Cui Tao and
               Yongqun He and
               Sivaram Arabandi},
  title     = {Vaccine and Drug Ontology Studies {(VDOS} 2014)},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {6},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-015-0039-8},
  doi       = {10.1186/s13326-015-0039-8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/TaoHA16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ThapenSH16,
  author    = {Nicholas A. Thapen and
               Donal Stephen Simmie and
               Chris Hankin},
  title     = {The early bird catches the term: combining twitter and news data for
               event detection and situational awareness},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {61},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0103-z},
  doi       = {10.1186/s13326-016-0103-z},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ThapenSH16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/VerspoorOCGRSDS16,
  author    = {Karin Verspoor and
               Anika Oellrich and
               Nigel Collier and
               Tudor Groza and
               Philippe Rocca{-}Serra and
               Larisa N. Soldatova and
               Michel Dumontier and
               Nigam Shah},
  title     = {Thematic issue of the Second combined Bio-ontologies and Phenotypes
               Workshop},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {66:1--66:4},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0108-7},
  doi       = {10.1186/s13326-016-0108-7},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/VerspoorOCGRSDS16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/VitaOSSKTEHBSP16,
  author    = {Randi Vita and
               James A. Overton and
               Emily Seymour and
               John Sidney and
               Jim Kaufman and
               Rebecca L. Tallmadge and
               Shirley Ellis and
               John Hammond and
               Geoff W. Butcher and
               Alessandro Sette and
               Bjoern Peters},
  title     = {An ontology for major histocompatibility restriction},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {1},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0045-5},
  doi       = {10.1186/s13326-016-0045-5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/VitaOSSKTEHBSP16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/YokochiKUKIILMN16,
  author    = {Masashi Yokochi and
               Naohiro Kobayashi and
               Eldon L. Ulrich and
               Akira R. Kinjo and
               Takeshi Iwata and
               Yannis E. Ioannidis and
               Miron Livny and
               John L. Markley and
               Haruki Nakamura and
               Chojiro Kojima and
               Toshimichi Fujiwara},
  title     = {Publication of nuclear magnetic resonance experimental data with semantic
               web technology and the application thereof to biomedical research
               of proteins},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {16},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0057-1},
  doi       = {10.1186/s13326-016-0057-1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/YokochiKUKIILMN16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ZhangWDXWTLX16,
  author    = {Yaoyun Zhang and
               Heng{-}Yi Wu and
               Jingcheng Du and
               Jun Xu and
               Jingqi Wang and
               Cui Tao and
               Lang Li and
               Hua Xu},
  title     = {Extracting drug-enzyme relation from literature as evidence for drug
               drug interaction},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {11},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0052-6},
  doi       = {10.1186/s13326-016-0052-6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ZhangWDXWTLX16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ZhangWDXWTLX16a,
  author    = {Yaoyun Zhang and
               Heng{-}Yi Wu and
               Jingcheng Du and
               Jun Xu and
               Jingqi Wang and
               Cui Tao and
               Lang Li and
               Hua Xu},
  title     = {Erratum to: Extracting drug-enzyme relation from literature as evidence
               for drug drug interaction},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {21},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0063-3},
  doi       = {10.1186/s13326-016-0063-3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ZhangWDXWTLX16a.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ZhengHMLHSH16,
  author    = {Jie Zheng and
               Marcelline R. Harris and
               Anna Maria Masci and
               Yu Lin and
               Alfred O. Hero III and
               Barry Smith and
               Yongqun He},
  title     = {The Ontology of Biological and Clinical Statistics {(OBCS)} for standardized
               and reproducible statistical analysis},
  journal   = {J. Biomed. Semant.},
  volume    = {7},
  pages     = {53},
  year      = {2016},
  url       = {https://doi.org/10.1186/s13326-016-0100-2},
  doi       = {10.1186/s13326-016-0100-2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ZhengHMLHSH16.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/AlmWWWH15,
  author    = {Rebekka Alm and
               Dagmar Waltemath and
               Markus Wolfien and
               Olaf Wolkenhauer and
               Ron Henkel},
  title     = {Annotation-based feature extraction from sets of {SBML} models},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {20},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0014-4},
  doi       = {10.1186/s13326-015-0014-4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/AlmWWWH15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/AmithGCBT15,
  author    = {Muhammad Amith and
               Yang Gong and
               Rachel Cunningham and
               Julie Boom and
               Cui Tao},
  title     = {Developing {VISO:} Vaccine Information Statement Ontology for patient
               education},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {23},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0016-2},
  doi       = {10.1186/s13326-015-0016-2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/AmithGCBT15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Aoki-KinoshitaK15,
  author    = {Kiyoko F. Aoki{-}Kinoshita and
               Akira R. Kinjo and
               Mizuki Morita and
               Yoshinobu Igarashi and
               Yi{-}an Chen and
               Yasumasa Shigemoto and
               Takatomo Fujisawa and
               Yukie Akune and
               Takeo Katoda and
               Anna Kokubu and
               Takaaki Mori and
               Mitsuteru Nakao and
               Shuichi Kawashima and
               Shinobu Okamoto and
               Toshiaki Katayama and
               Soichi Ogishima},
  title     = {Implementation of linked data in the life sciences at BioHackathon
               2011},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {3},
  year      = {2015},
  url       = {https://doi.org/10.1186/2041-1480-6-3},
  doi       = {10.1186/2041-1480-6-3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Aoki-KinoshitaK15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/AsiaeeMDT15,
  author    = {Amir H. Asiaee and
               Todd Minning and
               Prashant Doshi and
               Rick L. Tarleton},
  title     = {A framework for ontology-based question answering with application
               to parasite immunology},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {31},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0029-x},
  doi       = {10.1186/s13326-015-0029-x},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/AsiaeeMDT15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BolandTH15,
  author    = {Mary Regina Boland and
               Nicholas P. Tatonetti and
               George Hripcsak},
  title     = {Development and validation of a classification approach for extracting
               severity automatically from electronic health records},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {14},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0010-8},
  doi       = {10.1186/s13326-015-0010-8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BolandTH15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/CairelliFZR15,
  author    = {Michael J. Cairelli and
               Marcelo Fiszman and
               Han Zhang and
               Thomas C. Rindflesch},
  title     = {Networks of neuroinjury semantic predications to identify biomarkers
               for mild traumatic brain injury},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {25},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0022-4},
  doi       = {10.1186/s13326-015-0022-4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/CairelliFZR15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/CellierCPRCGKM15,
  author    = {Peggy Cellier and
               Thierry Charnois and
               Marc Plantevit and
               Christophe Rigotti and
               Bruno Cr{\'{e}}milleux and
               Olivier Gandrillon and
               Jir{\'{\i}} Kl{\'{e}}ma and
               Jean{-}Luc Manguin},
  title     = {Sequential pattern mining for discovering gene interactions and their
               contextual information from biomedical texts},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {27},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0023-3},
  doi       = {10.1186/s13326-015-0023-3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/CellierCPRCGKM15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ChristenHG15,
  author    = {Victor Christen and
               Michael Hartung and
               Anika Gro{\ss}},
  title     = {Region Evolution eXplorer - {A} tool for discovering evolution trends
               in ontology regions},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {26},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0020-6},
  doi       = {10.1186/s13326-015-0020-6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ChristenHG15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/CollierOG15,
  author    = {Nigel Collier and
               Anika Oellrich and
               Tudor Groza},
  title     = {Concept selection for phenotypes and diseases using learn to rank},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {24},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0019-z},
  doi       = {10.1186/s13326-015-0019-z},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/CollierOG15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/CunninghamMRRE15,
  author    = {Fiona Cunningham and
               Barry Moore and
               Nicole Ruiz{-}Schultz and
               Graham R. S. Ritchie and
               Karen Eilbeck},
  title     = {Improving the Sequence Ontology terminology for genomic variant annotation},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {32},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0030-4},
  doi       = {10.1186/s13326-015-0030-4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/CunninghamMRRE15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/DamKSSS15,
  author    = {Jesse C. J. van Dam and
               Jasper J. Koehorst and
               Peter J. Schaap and
               Vitor Martins dos Santos and
               Mar{\'{\i}}a Su{\'{a}}rez{-}Diez},
  title     = {RDF2Graph a tool to recover, understand and validate the ontology
               of an {RDF} resource},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {39},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0038-9},
  doi       = {10.1186/s13326-015-0038-9},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/DamKSSS15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Doing-HarrisLM15,
  author    = {Kristina Doing{-}Harris and
               Yarden Livnat and
               St{\'{e}}phane M. Meystre},
  title     = {Automated concept and relationship extraction for the semi-automated
               ontology management {(SEAM)} system},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {15},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0011-7},
  doi       = {10.1186/s13326-015-0011-7},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Doing-HarrisLM15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/DuckKRSN15,
  author    = {Geraint Duck and
               Aleksandar Kovacevic and
               David L. Robertson and
               Robert Stevens and
               Goran Nenadic},
  title     = {Ambiguity and variability of database and software names in bioinformatics},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {29},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0026-0},
  doi       = {10.1186/s13326-015-0026-0},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/DuckKRSN15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/FuBRA15,
  author    = {Xiao Fu and
               Riza Theresa Batista{-}Navarro and
               Rafal Rak and
               Sophia Ananiadou},
  title     = {Supporting the annotation of chronic obstructive pulmonary disease
               {(COPD)} phenotypes with text mining workflows},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {8},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0004-6},
  doi       = {10.1186/s13326-015-0004-6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/FuBRA15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/FujiwaraY15,
  author    = {Toyofumi Fujiwara and
               Yasunori Yamamoto},
  title     = {Colil: a database and search service for citation contexts in the
               life sciences domain},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {38},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0037-x},
  doi       = {10.1186/s13326-015-0037-x},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/FujiwaraY15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/FunkKBV15,
  author    = {Christopher S. Funk and
               Indika Kahanda and
               Asa Ben{-}Hur and
               Karin M. Verspoor},
  title     = {Evaluating a variety of text-mined features for automatic protein
               function prediction with GOstruct},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {9},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0006-4},
  doi       = {10.1186/s13326-015-0006-4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/FunkKBV15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/GrozaTRZ15,
  author    = {Tudor Groza and
               Tania Tudorache and
               Peter N. Robinson and
               Andreas Zankl},
  title     = {Capturing domain knowledge from multiple sources: the rare bone disorders
               use case},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {21},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0008-2},
  doi       = {10.1186/s13326-015-0008-2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/GrozaTRZ15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HastingsJOTMSW15,
  author    = {Janna Hastings and
               Nina Jeliazkova and
               Gareth Owen and
               Georgia Tsiliki and
               Cristian R. Munteanu and
               Christoph Steinbeck and
               Egon L. Willighagen},
  title     = {eNanoMapper: harnessing ontologies to enable data integration for
               nanomaterial risk assessment},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {10},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0005-5},
  doi       = {10.1186/s13326-015-0005-5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HastingsJOTMSW15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HoehndorfGGS15,
  author    = {Robert Hoehndorf and
               Michael Gruenberger and
               Georgios V. Gkoutos and
               Paul N. Schofield},
  title     = {Similarity-based search of model organism, disease and drug effect
               phenotypes},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {6},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0001-9},
  doi       = {10.1186/s13326-015-0001-9},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HoehndorfGGS15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HurOXH15,
  author    = {Junguk Hur and
               Arzucan {\"{O}}zg{\"{u}}r and
               Zuoshuang Xiang and
               Yongqun He},
  title     = {Development and application of an interaction network ontology for
               literature mining of vaccine-associated gene-gene interactions},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {2},
  year      = {2015},
  url       = {https://doi.org/10.1186/2041-1480-6-2},
  doi       = {10.1186/2041-1480-6-2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HurOXH15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/KafkasKPM15,
  author    = {Senay Kafkas and
               Jee{-}Hyub Kim and
               Xingjun Pi and
               Johanna R. McEntyre},
  title     = {Database citation in supplementary data linked to Europe PubMed Central
               full text biomedical articles},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {1},
  year      = {2015},
  url       = {https://doi.org/10.1186/2041-1480-6-1},
  doi       = {10.1186/2041-1480-6-1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/KafkasKPM15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/KafkasPMTMM15,
  author    = {Senay Kafkas and
               Xingjun Pi and
               Nikos Marinos and
               Francesco Talo' and
               Andrew Morrison and
               Johanna R. McEntyre},
  title     = {Section level search functionality in Europe {PMC}},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {7},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0003-7},
  doi       = {10.1186/s13326-015-0003-7},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/KafkasPMTMM15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/LambrixWD15,
  author    = {Patrick Lambrix and
               Fang Wei{-}Kleiner and
               Zlatan Dragisic},
  title     = {Completing the is-a structure in light-weight ontologies},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {12},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0002-8},
  doi       = {10.1186/s13326-015-0002-8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/LambrixWD15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/LerouxL15,
  author    = {Hugo Leroux and
               Laurent Lefort},
  title     = {Semantic enrichment of longitudinal clinical study data using the
               {CDISC} standards and the semantic statistics vocabularies},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {16},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0012-6},
  doi       = {10.1186/s13326-015-0012-6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/LerouxL15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/LevinC15,
  author    = {Mikhail K. Levin and
               Lindsay G. Cowell},
  title     = {owlcpp: a {C++} library for working with {OWL} ontologies},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {35},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0035-z},
  doi       = {10.1186/s13326-015-0035-z},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/LevinC15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/LinXH15,
  author    = {Yu Lin and
               Zuoshuang Xiang and
               Yongqun He},
  title     = {Ontology-based representation and analysis of host-Brucella interactions},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {37},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0036-y},
  doi       = {10.1186/s13326-015-0036-y},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/LinXH15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/MinaTK0HTHSMR15,
  author    = {Eleni Mina and
               Mark Thompson and
               Rajaram Kaliyaperumal and
               Jun Zhao and
               Eelke van der Horst and
               Zuotian Tatum and
               Kristina M. Hettne and
               Erik A. Schultes and
               Barend Mons and
               Marco Roos},
  title     = {Nanopublications for exposing experimental data in the life-sciences:
               a Huntington's Disease case study},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {5},
  year      = {2015},
  url       = {https://doi.org/10.1186/2041-1480-6-5},
  doi       = {10.1186/2041-1480-6-5},
  timestamp = {Sat, 05 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/MinaTK0HTHSMR15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/PapatheodorouOS15,
  author    = {Irene Papatheodorou and
               Anika Oellrich and
               Damian Smedley},
  title     = {Linking gene expression to phenotypes via pathway information},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {17},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0013-5},
  doi       = {10.1186/s13326-015-0013-5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/PapatheodorouOS15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/PetersBB15,
  author    = {Lee B. Peters and
               Nathan J. Bahr and
               Olivier Bodenreider},
  title     = {Evaluating drug-drug interaction information in {NDF-RT} and DrugBank},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {19},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0018-0},
  doi       = {10.1186/s13326-015-0018-0},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/PetersBB15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/PetrovaMTKDBS15,
  author    = {Alina Petrova and
               Yue Ma and
               George Tsatsaronis and
               Maria Kissa and
               Felix Distel and
               Franz Baader and
               Michael Schroeder},
  title     = {Formalizing biomedical concepts from textual definitions},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {22},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0015-3},
  doi       = {10.1186/s13326-015-0015-3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/PetrovaMTKDBS15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/RabattuMURRLP15,
  author    = {Pierre{-}Yves Rabattu and
               Benoit Mass{\'{e}} and
               Federico Ulliana and
               Marie{-}Christine Rousset and
               Damien Rohmer and
               Jean{-}Claude L{\'{e}}on and
               Olivier Palombi},
  title     = {My Corporis Fabrica Embryo: An ontology-based 3D spatio-temporal modeling
               of human embryo development},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {36},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0034-0},
  doi       = {10.1186/s13326-015-0034-0},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/RabattuMURRLP15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SmithE15,
  author    = {Cynthia L. Smith and
               Janan T. Eppig},
  title     = {Expanding the mammalian phenotype ontology to support automated exchange
               of high throughput mouse phenotyping data generated by large-scale
               mouse knockout screens},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {11},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0009-1},
  doi       = {10.1186/s13326-015-0009-1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SmithE15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SoldatovaCOGVRD15,
  author    = {Larisa N. Soldatova and
               Nigel Collier and
               Anika Oellrich and
               Tudor Groza and
               Karin M. Verspoor and
               Philippe Rocca{-}Serra and
               Michel Dumontier and
               Nigam H. Shah},
  title     = {Special issue on bio-ontologies and phenotypes},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {40},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0040-2},
  doi       = {10.1186/s13326-015-0040-2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SoldatovaCOGVRD15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SpasicZJB15,
  author    = {Irena Spasic and
               Bo Zhao and
               Christopher Jones and
               Kate Button},
  title     = {KneeTex: an ontology-driven system for information extraction from
               {MRI} reports},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {34},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0033-1},
  doi       = {10.1186/s13326-015-0033-1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SpasicZJB15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SuzukiTNT15,
  author    = {Asami Suzuki and
               Takako Takai{-}Igarashi and
               Jun Nakaya and
               Hiroshi Tanaka},
  title     = {Development of an Ontology for Periodontitis},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {30},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0028-y},
  doi       = {10.1186/s13326-015-0028-y},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SuzukiTNT15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/UciteliH15,
  author    = {Alexandr Uciteli and
               Heinrich Herre},
  title     = {OntoStudyEdit: a new approach for ontology-based representation and
               management of metadata in clinical and epidemiological research},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {41},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0042-0},
  doi       = {10.1186/s13326-015-0042-0},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/UciteliH15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/WeissenbornST15,
  author    = {Dirk Weissenborn and
               Michael Schroeder and
               George Tsatsaronis},
  title     = {Discovering relations between indirectly connected biomedical concepts},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {28},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0021-5},
  doi       = {10.1186/s13326-015-0021-5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/WeissenbornST15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/WinnenburgMB15,
  author    = {Rainer Winnenburg and
               Jonathan M. Mortensen and
               Olivier Bodenreider},
  title     = {Using description logics to evaluate the consistency of drug-class
               membership relations in {NDF-RT}},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {13},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0007-3},
  doi       = {10.1186/s13326-015-0007-3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/WinnenburgMB15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/WinnenburgSB15,
  author    = {Rainer Winnenburg and
               Alfred Sorbello and
               Olivier Bodenreider},
  title     = {Exploring adverse drug events at the class level},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {18},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0017-1},
  doi       = {10.1186/s13326-015-0017-1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/WinnenburgSB15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/XiangZLH15,
  author    = {Zuoshuang Xiang and
               Jie Zheng and
               Yu Lin and
               Yongqun He},
  title     = {Ontorat: automatic generation of new ontology terms, annotations,
               and axioms based on ontology design patterns},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {4},
  year      = {2015},
  url       = {https://doi.org/10.1186/2041-1480-6-4},
  doi       = {10.1186/2041-1480-6-4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/XiangZLH15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ZhangWLT15,
  author    = {Yuji Zhang and
               Puqiang Wu and
               Yi Luo and
               Cui Tao},
  title     = {Identification of sex-associated network patterns in Vaccine-Adverse
               Event Association Network in {VAERS}},
  journal   = {J. Biomed. Semant.},
  volume    = {6},
  pages     = {33},
  year      = {2015},
  url       = {https://doi.org/10.1186/s13326-015-0032-2},
  doi       = {10.1186/s13326-015-0032-2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ZhangWLT15.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/AbeyruwanVKVKMSCBCBSMRTBLS14,
  author    = {Saminda Abeyruwan and
               Uma D. Vempati and
               Hande K{\"{u}}{\c{c}}{\"{u}}k{-}McGinty and
               Ubbo Visser and
               Amar Koleti and
               Ahsan Mir and
               Kunie Sakurai and
               Caty Chung and
               Joshua A. Bittker and
               Paul A. Clemons and
               Steve Brudz and
               Anosha Siripala and
               Arturo J. Morales and
               Martin Romacker and
               David Twomey and
               Svetlana Bureeva and
               Vance P. Lemmon and
               Stephan C. Sch{\"{u}}rer},
  title     = {Evolving BioAssay Ontology {(BAO):} modularization, integration and
               applications},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  number    = {{S-1}},
  pages     = {S5},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-S1-S5},
  doi       = {10.1186/2041-1480-5-S1-S5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/AbeyruwanVKVKMSCBCBSMRTBLS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/AlirezaieL14,
  author    = {Marjan Alirezaie and
               Amy Loutfi},
  title     = {Automated Reasoning using Abduction for Interpretation of Medical
               Signals},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {35},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-35},
  doi       = {10.1186/2041-1480-5-35},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/AlirezaieL14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ArangurenGW14,
  author    = {Mikel Ega{\~{n}}a Aranguren and
               Alejandro Rodr{\'{\i}}guez Gonz{\'{a}}lez and
               Mark D. Wilkinson},
  title     = {Executing {SADI} services in Galaxy},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {42},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-42},
  doi       = {10.1186/2041-1480-5-42},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ArangurenGW14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BalhoffDDLMV14,
  author    = {James P. Balhoff and
               Wasila M. Dahdul and
               Thomas Dececchi and
               Hilmar Lapp and
               Paula M. Mabee and
               Todd J. Vision},
  title     = {Annotation of phenotypic diversity: decoupling data curation and ontology
               curation using Phenex},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {45},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-45},
  doi       = {10.1186/2041-1480-5-45},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BalhoffDDLMV14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BollingWH14,
  author    = {Christian B{\"{o}}lling and
               Michael Weidlich and
               Hermann{-}Georg Holzh{\"{u}}tter},
  title     = {{SEE:} structured representation of scientific evidence in the biomedical
               domain using Semantic Web techniques},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  number    = {{S-1}},
  pages     = {S1},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-S1-S1},
  doi       = {10.1186/2041-1480-5-S1-S1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BollingWH14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ChakrabartiJLXTLT14,
  author    = {Chayan Chakrabarti and
               Thomas B. Jones and
               George F. Luger and
               Jiawei F. Xu and
               Matthew D. Turner and
               Angela R. Laird and
               Jessica A. Turner},
  title     = {Statistical algorithms for ontology-based annotation of scientific
               literature},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  number    = {{S-1}},
  pages     = {S2},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-S1-S2},
  doi       = {10.1186/2041-1480-5-S1-S2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ChakrabartiJLXTLT14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ChaudhriEGGMWY14,
  author    = {Vinay K. Chaudhri and
               Daniel Elenius and
               Andrew Goldenkranz and
               Allison Gong and
               Maryann E. Martone and
               William Webb and
               Neil Yorke{-}Smith},
  title     = {Comparative analysis of knowledge representation and reasoning requirements
               across a range of life sciences textbooks},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {51},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-51},
  doi       = {10.1186/2041-1480-5-51},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ChaudhriEGGMWY14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ClarkCG14,
  author    = {Tim Clark and
               Paolo Ciccarese and
               Carole A. Goble},
  title     = {Micropublications: a semantic model for claims, evidence, arguments
               and annotations in biomedical communications},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {28},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-28},
  doi       = {10.1186/2041-1480-5-28},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ClarkCG14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ClarkSQCT14,
  author    = {Kimberly Clark and
               Deepak K. Sharma and
               Rui Qin and
               Christopher G. Chute and
               Cui Tao},
  title     = {A use case study on late stent thrombosis for ontology-based temporal
               reasoning and analysis},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {49},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-49},
  doi       = {10.1186/2041-1480-5-49},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ClarkSQCT14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/DahdulCMMOWH14,
  author    = {Wasila M. Dahdul and
               Hong Cui and
               Paula M. Mabee and
               Christopher J. Mungall and
               David Osumi{-}Sutherland and
               Ramona L. Walls and
               Melissa A. Haendel},
  title     = {Nose to tail, roots to shoots: spatial descriptors for phenotypic
               diversity in the Biological Spatial Ontology},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {34},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-34},
  doi       = {10.1186/2041-1480-5-34},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/DahdulCMMOWH14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Diallo14,
  author    = {Gayo Diallo},
  title     = {An effective method of large scale ontology matching},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {44},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-44},
  doi       = {10.1186/2041-1480-5-44},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Diallo14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/DietzeBFHLORM14,
  author    = {Heiko Dietze and
               Tanya Z. Berardini and
               Rebecca E. Foulger and
               David P. Hill and
               Jane Lomax and
               David Osumi{-}Sutherland and
               Paola Roncaglia and
               Christopher J. Mungall},
  title     = {TermGenie - {A} web application for pattern-based ontology class generation},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {48},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-48},
  doi       = {10.1186/2041-1480-5-48},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/DietzeBFHLORM14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/DoulaverakisNKK14,
  author    = {Charalampos Doulaverakis and
               George Nikolaidis and
               Athanasios Kleontas and
               Ioannis Kompatsiaris},
  title     = {Panacea, a semantic-enabled drug recommendations discovery framework},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {13},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-13},
  doi       = {10.1186/2041-1480-5-13},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/DoulaverakisNKK14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/DumontierBBCCCRDFKKMQSVWH14,
  author    = {Michel Dumontier and
               Christopher J. O. Baker and
               Joachim Baran and
               Alison Callahan and
               Leonid L. Chepelev and
               Jose Cruz{-}Toledo and
               Nicholas R. Del Rio and
               Geraint Duck and
               Laura In{\'{e}}s Furlong and
               Nichealla Keath and
               Dana Klassen and
               James P. McCusker and
               N{\'{u}}ria Queralt{-}Rosinach and
               Matthias Samwald and
               Natalia Villanueva{-}Rosales and
               Mark D. Wilkinson and
               Robert Hoehndorf},
  title     = {The Semanticscience Integrated Ontology {(SIO)} for biomedical research
               and knowledge discovery},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {14},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-14},
  doi       = {10.1186/2041-1480-5-14},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/DumontierBBCCCRDFKKMQSVWH14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/DupuchDHG14,
  author    = {Marie Dupuch and
               La{\"{e}}titia Dupuch and
               Thierry Hamon and
               Natalia Grabar},
  title     = {Exploitation of semantic methods to cluster pharmacovigilance terms},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {18},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-18},
  doi       = {10.1186/2041-1480-5-18},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/DupuchDHG14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/GonzalezCCGADW14,
  author    = {Alejandro Rodr{\'{\i}}guez Gonz{\'{a}}lez and
               Alison Callahan and
               Jos{\'{e}} Cruz{-}Toledo and
               Adrian Garcia and
               Mikel Ega{\~{n}}a Aranguren and
               Michel Dumontier and
               Mark D. Wilkinson},
  title     = {Automatically exposing OpenLifeData via {SADI} semantic Web Services},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {46},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-46},
  doi       = {10.1186/2041-1480-5-46},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/GonzalezCCGADW14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HaendelBBBBBCDDDHILMNRSM14,
  author    = {Melissa A. Haendel and
               James P. Balhoff and
               Frederic B. Bastian and
               David C. Blackburn and
               Judith A. Blake and
               Yvonne M. Bradford and
               Aur{\'{e}}lie Comte and
               Wasila M. Dahdul and
               Thomas Dececchi and
               Robert E. Druzinsky and
               Terry F. Hayamizu and
               Nizar Ibrahim and
               Suzanna E. Lewis and
               Paula M. Mabee and
               Anne Niknejad and
               Marc Robinson{-}Rechavi and
               Paul C. Sereno and
               Christopher J. Mungall},
  title     = {Unification of multi-species vertebrate anatomy ontologies for comparative
               biology in Uberon},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {21},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-21},
  doi       = {10.1186/2041-1480-5-21},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HaendelBBBBBCDDDHILMNRSM14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HastingsBCJS14,
  author    = {Janna Hastings and
               Andy Brass and
               Colin Caine and
               Caroline Jay and
               Robert Stevens},
  title     = {Evaluating the Emotion Ontology through use in the self-reporting
               of emotional responses at an academic conference},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {38},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-38},
  doi       = {10.1186/2041-1480-5-38},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HastingsBCJS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HeSLXGZJTTS14,
  author    = {Yongqun He and
               Sirarat Sarntivijai and
               Yu Lin and
               Zuoshuang Xiang and
               Abra Guo and
               Shelley Zhang and
               Desikan Jagannathan and
               Luca Toldo and
               Cui Tao and
               Barry Smith},
  title     = {{OAE:} The Ontology of Adverse Events},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {29},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-29},
  doi       = {10.1186/2041-1480-5-29},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HeSLXGZJTTS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HenrikssonMSDD14,
  author    = {Aron Henriksson and
               Hans Moen and
               Maria Skeppstedt and
               Vidas Daudaravicius and
               Martin Duneld},
  title     = {Synonym extraction and abbreviation expansion with ensembles of semantic
               spaces},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {6},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-6},
  doi       = {10.1186/2041-1480-5-6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HenrikssonMSDD14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HettneD0WBSMTCVGRCKSHBGR14,
  author    = {Kristina M. Hettne and
               Harish Dharuri and
               Jun Zhao and
               Katherine Wolstencroft and
               Khalid Belhajjame and
               Stian Soiland{-}Reyes and
               Eleni Mina and
               Mark Thompson and
               Don Cruickshank and
               Lourdes Verdes{-}Montenegro and
               Juli{\'{a}}n Garrido and
               David De Roure and
               {\'{O}}scar Corcho and
               Graham Klyne and
               Reinout van Schouwen and
               Peter A. C. 't Hoen and
               Sean Bechhofer and
               Carole A. Goble and
               Marco Roos},
  title     = {Structuring research methods and data with the research object model:
               genomics workflows as a case study},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {41},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-41},
  doi       = {10.1186/2041-1480-5-41},
  timestamp = {Sat, 05 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HettneD0WBSMTCVGRCKSHBGR14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HoehndorfRHS14,
  author    = {Robert Hoehndorf and
               Dietrich Rebholz{-}Schuhmann and
               Melissa A. Haendel and
               Robert Stevens},
  title     = {Thematic series on biomedical ontologies in {JBMS:} challenges and
               new directions},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {15},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-15},
  doi       = {10.1186/2041-1480-5-15},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HoehndorfRHS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/KalankeshNBB14,
  author    = {Leila Kalankesh and
               John P. New and
               Patricia G. Baker and
               Andy Brass},
  title     = {The languages of health in general practice electronic patient records:
               a Zipf's law analysis},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {2},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-2},
  doi       = {10.1186/2041-1480-5-2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/KalankeshNBB14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/KarystianisBN14,
  author    = {George Karystianis and
               Iain E. Buchan and
               Goran Nenadic},
  title     = {Mining characteristics of epidemiological studies from Medline: a
               case study in obesity},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {22},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-22},
  doi       = {10.1186/2041-1480-5-22},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/KarystianisBN14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/KatayamaWAKYYOKKWWKOBKAAAAABBBBCCCCCC14,
  author    = {Toshiaki Katayama and
               Mark D. Wilkinson and
               Kiyoko F. Aoki{-}Kinoshita and
               Shuichi Kawashima and
               Yasunori Yamamoto and
               Atsuko Yamaguchi and
               Shinobu Okamoto and
               Shin Kawano and
               Jin{-}Dong Kim and
               Yue Wang and
               Hongyan Wu and
               Yoshinobu Kano and
               Hiromasa Ono and
               Hidemasa Bono and
               Simon Kocbek and
               Jan Aerts and
               Yukie Akune and
               Erick Antezana and
               Kazuharu Arakawa and
               Bruno Aranda and
               Joachim Baran and
               Jerven T. Bolleman and
               Raoul Jean Pierre Bonnal and
               Pier Luigi Buttigieg and
               Matthew P. Campbell and
               Yi{-}an Chen and
               Hirokazu Chiba and
               Peter J. A. Cock and
               Kevin Bretonnel Cohen and
               Alexandru Constantin},
  title     = {BioHackathon series in 2011 and 2012: penetration of ontology and
               linked data in life science domains},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {5},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-5},
  doi       = {10.1186/2041-1480-5-5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/KatayamaWAKYYOKKWWKOBKAAAAABBBBCCCCCC14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/KleinRHB14,
  author    = {Artjom Klein and
               Alexandre Riazanov and
               Matthew M. Hindle and
               Christopher J. O. Baker},
  title     = {Benchmarking infrastructure for mutation text mining},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {11},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-11},
  doi       = {10.1186/2041-1480-5-11},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/KleinRHB14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/KuhnNLK14,
  author    = {Tobias Kuhn and
               Mate Levente Nagy and
               Thaibinh Luong and
               Michael Krauthammer},
  title     = {Mining images in biomedical publications: Detection and analysis of
               gel diagrams},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {10},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-10},
  doi       = {10.1186/2041-1480-5-10},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/KuhnNLK14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/LaurenneTSH14,
  author    = {Nina Laurenne and
               Jouni Tuominen and
               Hannu Saarenmaa and
               Eero Hyv{\"{o}}nen},
  title     = {Making species checklists understandable to machines - a shift from
               relational databases to ontologies},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {40},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-40},
  doi       = {10.1186/2041-1480-5-40},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/LaurenneTSH14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/LinH14,
  author    = {Yu Lin and
               Yongqun He},
  title     = {The ontology of genetic susceptibility factors {(OGSF)} and its application
               in modeling genetic susceptibility to vaccine adverse events},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {19},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-19},
  doi       = {10.1186/2041-1480-5-19},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/LinH14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/LingutlaPTCMJ14,
  author    = {Nikhil Lingutla and
               Justin Preece and
               Sinisa Todorovic and
               Laurel Cooper and
               Laura Moore and
               Pankaj Jaiswal},
  title     = {{AISO:} Annotation of Image Segments with Ontologies},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {50},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-50},
  doi       = {10.1186/2041-1480-5-50},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/LingutlaPTCMJ14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/MagkaKH14,
  author    = {Despoina Magka and
               Markus Kr{\"{o}}tzsch and
               Ian Horrocks},
  title     = {A rule-based ontological framework for the classification of molecules},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {17},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-17},
  doi       = {10.1186/2041-1480-5-17},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/MagkaKH14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/MaloneBLIHPS14,
  author    = {James Malone and
               Andy Brown and
               Allyson L. Lister and
               Jon C. Ison and
               Duncan Hull and
               Helen E. Parkinson and
               Robert Stevens},
  title     = {The Software Ontology {(SWO):} a resource for reproducibility in biomedical
               data analysis, curation and digital preservation},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {25},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-25},
  doi       = {10.1186/2041-1480-5-25},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/MaloneBLIHPS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/MarciniakM14,
  author    = {Malgorzata Marciniak and
               Agnieszka Mykowiecka},
  title     = {Terminology extraction from medical texts in Polish},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {24},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-24},
  doi       = {10.1186/2041-1480-5-24},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/MarciniakM14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/MerrillCCCD14,
  author    = {Emily Merrill and
               Stephane Corlosquet and
               Paolo Ciccarese and
               Tim Clark and
               Sudeshna Das},
  title     = {Semantic Web repositories for genomics data using the eXframe platform},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  number    = {{S-1}},
  pages     = {S3},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-S1-S3},
  doi       = {10.1186/2041-1480-5-S1-S3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/MerrillCCCD14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/NicholsMDNMTRB14,
  author    = {B. Nolan Nichols and
               Jos{\'{e}} L. V. Mejino Jr. and
               Landon Detwiler and
               Trond T. Nilsen and
               Maryann E. Martone and
               Jessica A. Turner and
               Daniel L. Rubin and
               James F. Brinkley},
  title     = {Neuroanatomical domain of the foundational model of anatomy ontology},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {1},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-1},
  doi       = {10.1186/2041-1480-5-1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/NicholsMDNMTRB14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/OellrichKWMLHRS14,
  author    = {Anika Oellrich and
               Sebastian K{\"{o}}hler and
               Nicole L. Washington and
               Chris Mungall and
               Suzanna Lewis and
               Melissa A. Haendel and
               Peter N. Robinson and
               Damian Smedley},
  title     = {The influence of disease categories on gene candidate predictions
               from model organism phenotypes},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  number    = {{S-1}},
  pages     = {S4},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-S1-S4},
  doi       = {10.1186/2041-1480-5-S1-S4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/OellrichKWMLHRS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/PalombiUFLR14,
  author    = {Olivier Palombi and
               Federico Ulliana and
               Valentin Favier and
               Jean{-}Claude L{\'{e}}on and
               Marie{-}Christine Rousset},
  title     = {My Corporis Fabrica: an ontology-based tool for reasoning and querying
               on complex anatomical models},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {20},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-20},
  doi       = {10.1186/2041-1480-5-20},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/PalombiUFLR14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/PaulGHZ14,
  author    = {Razan Paul and
               Tudor Groza and
               Jane Hunter and
               Andreas Zankl},
  title     = {Semantic interestingness measures for discovering association rules
               in the skeletal dysplasia domain},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {8},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-8},
  doi       = {10.1186/2041-1480-5-8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/PaulGHZ14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/PesquitaFCS14,
  author    = {Catia Pesquita and
               Jo{\~{a}}o D. Ferreira and
               Francisco M. Couto and
               M{\'{a}}rio J. Silva},
  title     = {The epidemiology ontology: an ontology for the semantic annotation
               of epidemiological resources},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {4},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-4},
  doi       = {10.1186/2041-1480-5-4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/PesquitaFCS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/PetriJTHSPLLNWSDMWJ14,
  author    = {Victoria Petri and
               Pushkala Jayaraman and
               Marek Tutaj and
               G. Thomas Hayman and
               Jennifer R. Smith and
               Jeff de Pons and
               Stanley J. F. Laulederkind and
               Timothy Lowry and
               Rajni Nigam and
               Shur{-}Jen Wang and
               Mary Shimoyama and
               Melinda R. Dwinell and
               Diane H. Munzenmaier and
               Elizabeth A. Worthey and
               Howard J. Jacob},
  title     = {The pathway ontology - updates and applications},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {7},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-7},
  doi       = {10.1186/2041-1480-5-7},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/PetriJTHSPLLNWSDMWJ14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/RohlJ14,
  author    = {Johannes R{\"{o}}hl and
               Ludger Jansen},
  title     = {Why functions are not special dispositions: an improved classification
               of realizables for top-level ontologies},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {27},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-27},
  doi       = {10.1186/2041-1480-5-27},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/RohlJ14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SaleemPNIADD14,
  author    = {Muhammad Saleem and
               Shanmukha S. Padmanabhuni and
               Axel{-}Cyrille Ngonga Ngomo and
               Aftab Iqbal and
               Jonas S. Almeida and
               Stefan Decker and
               Helena F. Deus},
  title     = {TopFed: {TCGA} Tailored Federated Query Processing and Linking to
               {LOD}},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {47},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-47},
  doi       = {10.1186/2041-1480-5-47},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SaleemPNIADD14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SarntivijaiLXMDVSPMPLTSMNBHZSPMCSAH14,
  author    = {Sirarat Sarntivijai and
               Yu Lin and
               Zuoshuang Xiang and
               Terrence F. Meehan and
               Alexander D. Diehl and
               Uma D. Vempati and
               Stephan C. Sch{\"{u}}rer and
               Chao Pang and
               James Malone and
               Helen E. Parkinson and
               Yue Liu and
               Terue Takatsuki and
               Kaoru Saijo and
               Hiroshi Masuya and
               Yukio Nakamura and
               Matthew H. Brush and
               Melissa A. Haendel and
               Jie Zheng and
               Christian J. Stoeckert Jr. and
               Bjoern Peters and
               Christopher J. Mungall and
               Thomas E. Carey and
               David J. States and
               Brian D. Athey and
               Yongqun He},
  title     = {{CLO:} The cell line ontology},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {37},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-37},
  doi       = {10.1186/2041-1480-5-37},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SarntivijaiLXMDVSPMPLTSMNBHZSPMCSAH14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SlykeBWH14,
  author    = {Ceri E. Van Slyke and
               Yvonne M. Bradford and
               Monte Westerfield and
               Melissa A. Haendel},
  title     = {The zebrafish anatomy and stage ontologies: representing the anatomy
               and development of Danio rerio},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {12},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-12},
  doi       = {10.1186/2041-1480-5-12},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SlykeBWH14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SoldatovaRDS14,
  author    = {Larisa N. Soldatova and
               Philippe Rocca{-}Serra and
               Michel Dumontier and
               Nigam H. Shah},
  title     = {Selected papers from the 16th Annual Bio-Ontologies Special Interest
               Group Meeting},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  number    = {{S-1}},
  pages     = {1},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-S1-I1},
  doi       = {10.1186/2041-1480-5-S1-I1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SoldatovaRDS14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/StenetorpPAT14,
  author    = {Pontus Stenetorp and
               Sampo Pyysalo and
               Sophia Ananiadou and
               Jun'ichi Tsujii},
  title     = {Generalising semantic category disambiguation with large lexical resources
               for fun and profit},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {26},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-26},
  doi       = {10.1186/2041-1480-5-26},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/StenetorpPAT14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/TaoHA14,
  author    = {Cui Tao and
               Yongqun He and
               Sivaram Arabandi},
  title     = {A 2013 workshop: vaccine and drug ontology studies {(VDOS} 2013)},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {16},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-16},
  doi       = {10.1186/2041-1480-5-16},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/TaoHA14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/TatumRGTTSL14,
  author    = {Zuotian Tatum and
               Marco Roos and
               Andrew P. Gibson and
               Peter E. M. Taschner and
               Mark Thompson and
               Erik A. Schultes and
               Jeroen F. J. Laros},
  title     = {Preserving sequence annotations across reference sequences},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  number    = {{S-1}},
  pages     = {S6},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-S1-S6},
  doi       = {10.1186/2041-1480-5-S1-S6},
  timestamp = {Sat, 05 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/TatumRGTTSL14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ThackerDKVSHM14,
  author    = {Robert W. Thacker and
               Maria D{\'{\i}}az and
               Adeline Kerner and
               R{\'{e}}gine Vignes{-}Lebbe and
               Erik Segerdell and
               Melissa A. Haendel and
               Christopher J. Mungall},
  title     = {The Porifera Ontology {(PORO):} enhancing sponge systematics with
               an anatomy ontology},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {39},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-39},
  doi       = {10.1186/2041-1480-5-39},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ThackerDKVSHM14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ToriiWL14,
  author    = {Manabu Torii and
               Kavishwar B. Wagholikar and
               Hongfang Liu},
  title     = {Detecting concept mentions in biomedical text using hidden Markov
               model: multiple concept types at once or one at a time?},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {3},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-3},
  doi       = {10.1186/2041-1480-5-3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ToriiWL14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/VazFSJBPRRC14,
  author    = {C{\'{a}}tia Vaz and
               Alexandre P. Francisco and
               Mickael Silva and
               Keith A. Jolley and
               James E. Bray and
               Hannes Pouseele and
               J{\"{o}}rg Rothg{\"{a}}nger and
               M{\'{a}}rio Ramirez and
               Jo{\~{a}}o A. Carri{\c{c}}o},
  title     = {TypOn: the microbial typing ontology},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {43},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-43},
  doi       = {10.1186/2041-1480-5-43},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/VazFSJBPRRC14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Vihinen14,
  author    = {Mauno Vihinen},
  title     = {Variation ontology: annotator guide},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {9},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-9},
  doi       = {10.1186/2041-1480-5-9},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Vihinen14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/WangJLL14,
  author    = {Liwei Wang and
               Guoqian Jiang and
               Dingcheng Li and
               Hongfang Liu},
  title     = {Standardizing adverse drug event reporting data},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {36},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-36},
  doi       = {10.1186/2041-1480-5-36},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/WangJLL14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/WinnenburgB14,
  author    = {Rainer Winnenburg and
               Olivier Bodenreider},
  title     = {A framework for assessing the consistency of drug classes across sources},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {30},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-30},
  doi       = {10.1186/2041-1480-5-30},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/WinnenburgB14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/WuFYBY14,
  author    = {Hongyan Wu and
               Toyofumi Fujiwara and
               Yasunori Yamamoto and
               Jerven T. Bolleman and
               Atsuko Yamaguchi},
  title     = {BioBenchmark Toyama 2012: an evaluation of the performance of triple
               stores on biological data},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {32},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-32},
  doi       = {10.1186/2041-1480-5-32},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/WuFYBY14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/YamagataKIOM14,
  author    = {Yuki Yamagata and
               Kouji Kozaki and
               Takeshi Imai and
               Kazuhiko Ohe and
               Riichiro Mizoguchi},
  title     = {An ontological modeling approach for abnormal states and its application
               in the medical domain},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {23},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-23},
  doi       = {10.1186/2041-1480-5-23},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/YamagataKIOM14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/YounesiAGACHHP14,
  author    = {Erfan Younesi and
               Sam Ansari and
               Michaela G{\"{u}}ndel and
               Shiva Ahmadi and
               Chris Coggins and
               Julia Hoeng and
               Martin Hofmann{-}Apitius and
               Manuel C. Peitsch},
  title     = {{CSEO} - the Cigarette Smoke Exposure Ontology},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {31},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-31},
  doi       = {10.1186/2041-1480-5-31},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/YounesiAGACHHP14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ZhangTJNSCL14,
  author    = {Yuji Zhang and
               Cui Tao and
               Guoqian Jiang and
               Asha A. Nair and
               Jian Su and
               Christopher G. Chute and
               Hongfang Liu},
  title     = {Network-based analysis reveals distinct association patterns in a
               semantic MEDLINE-based drug-disease-gene network},
  journal   = {J. Biomed. Semant.},
  volume    = {5},
  pages     = {33},
  year      = {2014},
  url       = {https://doi.org/10.1186/2041-1480-5-33},
  doi       = {10.1186/2041-1480-5-33},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ZhangTJNSCL14.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Aoki-KinoshitaBCKKLMORSSSSTYPN13,
  author    = {Kiyoko F. Aoki{-}Kinoshita and
               Jerven T. Bolleman and
               Matthew P. Campbell and
               Shin Kawano and
               Jin{-}Dong Kim and
               Thomas L{\"{u}}tteke and
               Masaaki Matsubara and
               Shujiro Okuda and
               Ren{\'{e}} Ranzinger and
               Hiromichi Sawaki and
               Toshihide Shikanai and
               Daisuke Shinmachi and
               Yoshinori Suzuki and
               Philip V. Toukach and
               Issaku Yamada and
               Nicolle H. Packer and
               Hisashi Narimatsu},
  title     = {Introducing glycomics data into the Semantic Web},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {39},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-39},
  doi       = {10.1186/2041-1480-4-39},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Aoki-KinoshitaBCKKLMORSSSSTYPN13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ArangurenFAMGW13,
  author    = {Mikel Ega{\~{n}}a Aranguren and
               Jesualdo Tom{\'{a}}s Fern{\'{a}}ndez{-}Breis and
               Erick Antezana and
               Chris Mungall and
               Alejandro Rodr{\'{\i}}guez Gonz{\'{a}}lez and
               Mark D. Wilkinson},
  title     = {OPPL-Galaxy, a Galaxy tool for enhancing ontology exploitation as
               part of bioinformatics workflows},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {2},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-2},
  doi       = {10.1186/2041-1480-4-2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ArangurenFAMGW13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BonoGBH13,
  author    = {Bernard de Bono and
               Pierre Grenon and
               Richard A. Baldock and
               Peter Hunter},
  title     = {Functional tissue units and their primary tissue motifs in multi-scale
               physiology},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {22},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-22},
  doi       = {10.1186/2041-1480-4-22},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BonoGBH13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BoyceHHWSLRL13,
  author    = {Richard D. Boyce and
               John R. Horn and
               Oktie Hassanzadeh and
               Anita de Waard and
               Jodi Schneider and
               Joanne S. Luciano and
               Majid Rastegar{-}Mojarad and
               Maria Liakata},
  title     = {Dynamic enhancement of drug product labels to support drug safety,
               efficacy, and effectiveness},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {5},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-5},
  doi       = {10.1186/2041-1480-4-5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BoyceHHWSLRL13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BrochhausenFKEMHNKHTHL13,
  author    = {Mathias Brochhausen and
               Martin N. Fransson and
               Nitin Kanaskar and
               Mikael Eriksson and
               Roxana Merino{-}Martinez and
               Roger A. Hall and
               Loreana Norlin and
               Sanela Kjellqvist and
               Maria Hortlund and
               Umit Topaloglu and
               William R. Hogan and
               Jan{-}Eric Litton},
  title     = {Developing a semantically rich ontology for the biobank-administration
               domain},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {23},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-23},
  doi       = {10.1186/2041-1480-4-23},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BrochhausenFKEMHNKHTHL13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ButtigiegMSML13,
  author    = {Pier Luigi Buttigieg and
               Norman Morrison and
               Barry Smith and
               Christopher J. Mungall and
               Suzanna E. Lewis},
  title     = {The environment ontology: contextualising biological and biomedical
               entities},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {43},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-43},
  doi       = {10.1186/2041-1480-4-43},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ButtigiegMSML13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/CallahanCD13,
  author    = {Alison Callahan and
               Jose Cruz{-}Toledo and
               Michel Dumontier},
  title     = {Ontology-Based Querying with Bio2RDF's Linked Open Data},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  number    = {{S-1}},
  pages     = {S1},
  year      = {2013},
  url       = {http://www.jbiomedsem.com/content/4/S1/S1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/CallahanCD13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/CatalanLSA13,
  author    = {Mar{\'{\i}}a P{\'{e}}rez Catal{\'{a}}n and
               Rafael Berlanga Llavori and
               Ismael Sanz and
               Mar{\'{\i}}a Jos{\'{e}} Aramburu},
  title     = {BioUSeR: {A} semantic-based tool for retrieving Life Science web resources
               driven by text-rich user requirements},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {12},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-12},
  doi       = {10.1186/2041-1480-4-12},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/CatalanLSA13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/CiccareseSBGGC13,
  author    = {Paolo Ciccarese and
               Stian Soiland{-}Reyes and
               Khalid Belhajjame and
               Alasdair J. G. Gray and
               Carole A. Goble and
               Tim Clark},
  title     = {{PAV} ontology: provenance, authoring and versioning},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {37},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-37},
  doi       = {10.1186/2041-1480-4-37},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/CiccareseSBGGC13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ClarkeLGS13,
  author    = {Erik L. Clarke and
               Salvatore Loguercio and
               Benjamin M. Good and
               Andrew I. Su},
  title     = {A task-based approach for Gene Ontology evaluation},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  number    = {{S-1}},
  pages     = {S4},
  year      = {2013},
  url       = {http://www.jbiomedsem.com/content/4/S1/S4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ClarkeLGS13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/CookNBG13,
  author    = {Daniel L. Cook and
               Maxwell Lewis Neal and
               Fred L. Bookstein and
               John H. Gennari},
  title     = {Ontology of physics for biology: representing physical dependencies
               as a basis for biological processes},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {41},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-41},
  doi       = {10.1186/2041-1480-4-41},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/CookNBG13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/CookNHGG13,
  author    = {Daniel L. Cook and
               Maxwell Lewis Neal and
               Robert Hoehndorf and
               Georgios V. Gkoutos and
               John H. Gennari},
  title     = {Representing physiological processes and their participants with PhysioMaps},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  number    = {{S-1}},
  pages     = {S2},
  year      = {2013},
  url       = {http://www.jbiomedsem.com/content/4/S1/S2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/CookNHGG13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/CostaRGO13,
  author    = {Marta Costa and
               Simon Reeve and
               Gary Grumbling and
               David Osumi{-}Sutherland},
  title     = {The Drosophila anatomy ontology},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {32},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-32},
  doi       = {10.1186/2041-1480-4-32},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/CostaRGO13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/DameronBZBBC13,
  author    = {Olivier Dameron and
               Paolo Besana and
               Oussama Zekri and
               Annabel Bourde and
               Anita Burgun and
               Marc Cuggia},
  title     = {{OWL} model of clinical trial eligibility criteria compatible with
               partially-known information},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {17},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-17},
  doi       = {10.1186/2041-1480-4-17},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/DameronBZBBC13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/EisingerTBWS13,
  author    = {Daniel Eisinger and
               George Tsatsaronis and
               Markus Bundschus and
               Ulrich Wieneke and
               Michael Schroeder},
  title     = {Automated Patent Categorization and Guided Patent Search using {IPC}
               as Inspired by MeSH and PubMed},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  number    = {{S-1}},
  pages     = {S3},
  year      = {2013},
  url       = {http://www.jbiomedsem.com/content/4/S1/S3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/EisingerTBWS13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/FuellenJLK13,
  author    = {Georg Fuellen and
               Ludger Jansen and
               Ulf Leser and
               Andreas Kurtz},
  title     = {Using ontologies to study cell transitions},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {25},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-25},
  doi       = {10.1186/2041-1480-4-25},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/FuellenJLK13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Garcia-CastroMC13,
  author    = {Leyla Jael Garc{\'{\i}}a{-}Castro and
               Casey McLaughlin and
               Alexander Garc{\'{\i}}a Castro},
  title     = {Biotea: RDFizing PubMed Central in support for the paper as an interface
               to the Web of Data},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  number    = {{S-1}},
  pages     = {S5},
  year      = {2013},
  url       = {http://www.jbiomedsem.com/content/4/S1/S5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Garcia-CastroMC13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/GundelYMWLZBMH13,
  author    = {Michaela G{\"{u}}ndel and
               Erfan Younesi and
               Ashutosh Malhotra and
               Jiali Wang and
               Hui Li and
               Bijun Zhang and
               Bernard de Bono and
               Heinz{-}Theodor Mevissen and
               Martin Hofmann{-}Apitius},
  title     = {HuPSON: the human physiology simulation ontology},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {35},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-35},
  doi       = {10.1186/2041-1480-4-35},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/GundelYMWLZBMH13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HannaJBH13,
  author    = {Josh Hanna and
               Eric Joseph and
               Mathias Brochhausen and
               William R. Hogan},
  title     = {Building a drug ontology based on RxNorm and other sources},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {44},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-44},
  doi       = {10.1186/2041-1480-4-44},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HannaJBH13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HassanpourOD13,
  author    = {Saeed Hassanpour and
               Martin J. O'Connor and
               Amar K. Das},
  title     = {A semantic-based method for extracting concept definitions from scientific
               publications: evaluation in the autism phenotype domain},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {14},
  year      = {2013},
  url       = {http://www.jbiomedsem.com/content/4/1/14},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HassanpourOD13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HayamizuWDBRB13,
  author    = {Terry F. Hayamizu and
               Michael N. Wicks and
               Duncan Davidson and
               Albert Burger and
               Martin Ringwald and
               Richard A. Baldock},
  title     = {{EMAP/EMAPA} ontology of mouse developmental anatomy: 2013 update},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {15},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-15},
  doi       = {10.1186/2041-1480-4-15},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HayamizuWDBRB13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/JensenCCNSDRWSRSD13,
  author    = {Mark Jensen and
               Alexander P. Cox and
               Naveed Chaudhry and
               Marcus Ng and
               Donat Sule and
               William D. Duncan and
               Patrick Ray and
               Bianca Weinstock{-}Guttman and
               Barry Smith and
               Alan Ruttenberg and
               Kinga Szigeti and
               Alexander D. Diehl},
  title     = {The neurological disease ontology},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {42},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-42},
  doi       = {10.1186/2041-1480-4-42},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/JensenCCNSDRWSRSD13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/JiangSC13,
  author    = {Guoqian Jiang and
               Harold R. Solbrig and
               Christopher G. Chute},
  title     = {Using Semantic Web technology to support icd-11 textual definitions
               authoring},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {11},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-11},
  doi       = {10.1186/2041-1480-4-11},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/JiangSC13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/KarlssonT13,
  author    = {Tor Johan Mikael Karlsson and
               Oswaldo Trelles},
  title     = {{MAPI:} a software framework for distributed biomedical applications},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {4},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-4},
  doi       = {10.1186/2041-1480-4-4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/KarlssonT13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/KnupferB13,
  author    = {Christian Kn{\"{u}}pfer and
               Clemens Beckstein},
  title     = {Function of dynamic models in systems biology: linking structure to
               behaviour},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {24},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-24},
  doi       = {10.1186/2041-1480-4-24},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/KnupferB13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/KontonasiosKKTA13,
  author    = {Georgios Kontonatsios and
               Ioannis Korkontzelos and
               BalaKrishna Kolluru and
               Paul Thompson and
               Sophia Ananiadou},
  title     = {Deploying and sharing U-Compare workflows as web services},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {7},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-7},
  doi       = {10.1186/2041-1480-4-7},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/KontonasiosKKTA13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/LambrixI13,
  author    = {Patrick Lambrix and
               Valentina Ivanova},
  title     = {A unified approach for debugging is-a structure and mappings in networked
               taxonomies},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {10},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-10},
  doi       = {10.1186/2041-1480-4-10},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/LambrixI13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/LivingstonBHV13,
  author    = {Kevin M. Livingston and
               Michael Bada and
               Lawrence E. Hunter and
               Karin Verspoor},
  title     = {Representing annotation compositionality and provenance for the Semantic
               Web},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {38},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-38},
  doi       = {10.1186/2041-1480-4-38},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/LivingstonBHV13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/MachadoFC13,
  author    = {Catia M. Machado and
               Ana T. Freitas and
               Francisco M. Couto},
  title     = {Enrichment analysis applied to disease prognosis},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {21},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-21},
  doi       = {10.1186/2041-1480-4-21},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/MachadoFC13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/MarcosZH13,
  author    = {Erica Marcos and
               Bin Zhao and
               Yongqun He},
  title     = {The Ontology of Vaccine Adverse Events {(OVAE)} and its usage in representing
               and analyzing adverse events associated with US-licensed human vaccines},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {40},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-40},
  doi       = {10.1186/2041-1480-4-40},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/MarcosZH13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/MidfordDBDILLMSWVB13,
  author    = {Peter E. Midford and
               Thomas Dececchi and
               James P. Balhoff and
               Wasila M. Dahdul and
               Nizar Ibrahim and
               Hilmar Lapp and
               John G. Lundberg and
               Paula M. Mabee and
               Paul C. Sereno and
               Monte Westerfield and
               Todd J. Vision and
               David C. Blackburn},
  title     = {The vertebrate taxonomy ontology: a framework for reasoning across
               model organism and species phenotypes},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {34},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-34},
  doi       = {10.1186/2041-1480-4-34},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/MidfordDBDILLMSWVB13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/NigamMWDSJ13,
  author    = {Rajni Nigam and
               Diane H. Munzenmaier and
               Elizabeth A. Worthey and
               Melinda R. Dwinell and
               Mary Shimoyama and
               Howard J. Jacob},
  title     = {Rat Strain Ontology: structured controlled vocabulary designed to
               facilitate access to strain data at {RGD}},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {36},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-36},
  doi       = {10.1186/2041-1480-4-36},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/NigamMWDSJ13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/OellrichGR13,
  author    = {Anika Oellrich and
               Christoph Grabm{\"{u}}ller and
               Dietrich Rebholz{-}Schuhmann},
  title     = {Automatically transforming pre- to post-composed phenotypes: EQ-lising
               {HPO} and {MP}},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {29},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-29},
  doi       = {10.1186/2041-1480-4-29},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/OellrichGR13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Osumi-SutherlandMMMPSFBG13,
  author    = {David Osumi{-}Sutherland and
               Steven J. Marygold and
               Gillian H. Millburn and
               Peter McQuilton and
               Laura Ponting and
               Raymund Stefancsik and
               Kathleen Falls and
               Nicholas H. Brown and
               Georgios V. Gkoutos},
  title     = {The Drosophila phenotype ontology},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {30},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-30},
  doi       = {10.1186/2041-1480-4-30},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Osumi-SutherlandMMMPSFBG13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ParkBSHMNSSER13,
  author    = {Carissa A. Park and
               Susan M. Bello and
               Cynthia L. Smith and
               Zhi{-}Liang Hu and
               Diane H. Munzenmaier and
               Rajni Nigam and
               Jennifer R. Smith and
               Mary Shimoyama and
               Janan T. Eppig and
               James M. Reecy},
  title     = {The Vertebrate Trait Ontology: a controlled vocabulary for the annotation
               of trait data across species},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {13},
  year      = {2013},
  url       = {http://www.jbiomedsem.com/content/4/1/13},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ParkBSHMNSSER13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Rebholz-SchuhmannKKJL13,
  author    = {Dietrich Rebholz{-}Schuhmann and
               Senay Kafkas and
               Jee{-}Hyub Kim and
               Antonio Jimeno{-}Yepes and
               Ian Lewin},
  title     = {Monitoring named entity recognition: the League Table},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {19},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-19},
  doi       = {10.1186/2041-1480-4-19},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Rebholz-SchuhmannKKJL13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Rebholz-SchuhmannKKLJHBL13,
  author    = {Dietrich Rebholz{-}Schuhmann and
               Senay Kafkas and
               Jee{-}Hyub Kim and
               Chen Li and
               Antonio Jimeno{-}Yepes and
               Robert Hoehndorf and
               Rolf Backofen and
               Ian Lewin},
  title     = {Evaluating gold standard corpora against gene/protein tagging solutions
               and lexical resources},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {28},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-28},
  doi       = {10.1186/2041-1480-4-28},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Rebholz-SchuhmannKKLJHBL13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/RiazanovKSRFBB13,
  author    = {Alexandre Riazanov and
               Artjom Klein and
               Arash Shaban{-}Nejad and
               Gregory W. Rose and
               Alan J. Forster and
               David L. Buckeridge and
               Christopher J. O. Baker},
  title     = {Semantic querying of relational data for clinical intelligence: a
               semantic web services-based approach},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {9},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-9},
  doi       = {10.1186/2041-1480-4-9},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/RiazanovKSRFBB13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/RoncagliaMHBFIDML13,
  author    = {Paola Roncaglia and
               Maryann E. Martone and
               David P. Hill and
               Tanya Z. Berardini and
               Rebecca E. Foulger and
               Fahim T. Imam and
               Harold J. Drabkin and
               Christopher J. Mungall and
               Jane Lomax},
  title     = {The Gene Ontology {(GO)} Cellular Component Ontology: integration
               with {SAO} (Subcellular Anatomy Ontology) and other recent developments},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {20},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-20},
  doi       = {10.1186/2041-1480-4-20},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/RoncagliaMHBFIDML13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SchofieldSSMG13,
  author    = {Paul N. Schofield and
               John P. Sundberg and
               Beth A. Sundberg and
               Colin McKerlie and
               Georgios V. Gkoutos},
  title     = {The mouse pathology ontology, MPATH; structure and applications},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {18},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-18},
  doi       = {10.1186/2041-1480-4-18},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SchofieldSSMG13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SegerdellPJBFDVZ13,
  author    = {Erik Segerdell and
               Virgilio G. Ponferrada and
               Christina James{-}Zorn and
               Kevin A. Burns and
               Joshua Fortriede and
               Wasila M. Dahdul and
               Peter D. Vize and
               Aaron M. Zorn},
  title     = {Enhanced {XAO:} the ontology of Xenopus anatomy and development underpins
               more accurate annotation of gene expression and queries on Xenbase},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {31},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-31},
  doi       = {10.1186/2041-1480-4-31},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SegerdellPJBFDVZ13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SmithPNLHWLPPTLWSD13,
  author    = {Jennifer R. Smith and
               Carissa A. Park and
               Rajni Nigam and
               Stanley J. F. Laulederkind and
               G. Thomas Hayman and
               Shur{-}Jen Wang and
               Timothy Lowry and
               Victoria Petri and
               Jeff de Pons and
               Marek Tutaj and
               Weisong Liu and
               Elizabeth A. Worthey and
               Mary Shimoyama and
               Melinda R. Dwinell},
  title     = {The clinical measurement, measurement method and experimental condition
               ontologies: expansion, improvements and new applications},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {26},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-26},
  doi       = {10.1186/2041-1480-4-26},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SmithPNLHWLPPTLWSD13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SoldatovaRGK13,
  author    = {Larisa N. Soldatova and
               Andrey Rzhetsky and
               Kurt De Grave and
               Ross D. King},
  title     = {Representation of probabilistic scientific knowledge},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  number    = {{S-1}},
  pages     = {S7},
  year      = {2013},
  url       = {http://www.jbiomedsem.com/content/4/S1/S7},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SoldatovaRGK13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SoldatovaSDS13,
  author    = {Larisa N. Soldatova and
               Susanna{-}Assunta Sansone and
               Michel Dumontier and
               Nigam H. Shah},
  title     = {Selected papers from the 15th Annual Bio-Ontologies Special Interest
               Group Meeting},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  number    = {{S-1}},
  pages     = {I1},
  year      = {2013},
  url       = {http://www.jbiomedsem.com/content/4/S1/I1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SoldatovaSDS13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SpasicGPFE13,
  author    = {Irena Spasic and
               R. Mark Greenwood and
               Alun D. Preece and
               Nick Francis and
               Glyn Elwyn},
  title     = {FlexiTerm: a flexible term recognition method},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {27},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-27},
  doi       = {10.1186/2041-1480-4-27},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SpasicGPFE13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/TopalisMDDL13,
  author    = {Pantelis Topalis and
               Elvira Mitraka and
               Vicky Dritsou and
               Emmanuel Dialynas and
               Christos Louis},
  title     = {{IDOMAL:} the malaria ontology revisited},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {16},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-16},
  doi       = {10.1186/2041-1480-4-16},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/TopalisMDDL13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/VitaOGSP13,
  author    = {Randi Vita and
               James A. Overton and
               Jason Greenbaum and
               Alessandro Sette and
               Bj{\"{o}}rn Peters},
  title     = {Query enhancement through the practical application of ontology: the
               {IEDB} and {OBI}},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  number    = {{S-1}},
  pages     = {S6},
  year      = {2013},
  url       = {http://www.jbiomedsem.com/content/4/S1/S6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/VitaOGSP13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/WagholikarTJL13,
  author    = {Kavishwar B. Wagholikar and
               Manabu Torii and
               Siddhartha Jonnalagadda and
               Hongfang Liu},
  title     = {Pooling annotated corpora for clinical concept extraction},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {3},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-3},
  doi       = {10.1186/2041-1480-4-3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/WagholikarTJL13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Whetzela13,
  author    = {Patricia L. Whetzel and
               et al.},
  title     = {{NCBO} Technology: Powering semantically aware applications},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  number    = {{S-1}},
  pages     = {S8},
  year      = {2013},
  url       = {http://www.jbiomedsem.com/content/4/S1/S8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Whetzela13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/WuKDMCBCSLC13,
  author    = {Stephen T. Wu and
               Vinod Kaggal and
               Dmitriy Dligach and
               James J. Masanz and
               Pei J. Chen and
               Lee Becker and
               Wendy Webber Chapman and
               Guergana K. Savova and
               Hongfang Liu and
               Christopher G. Chute},
  title     = {A common type system for clinical natural language processing},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {1},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-1},
  doi       = {10.1186/2041-1480-4-1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/WuKDMCBCSLC13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/X13,
  title     = {The 3rd {DBCLS} BioHackathon: improving life science data integration
               with semantic Web technologies},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {6},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-6},
  doi       = {10.1186/2041-1480-4-6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/X13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/YamamotoYY13,
  author    = {Yasunori Yamamoto and
               Atsuko Yamaguchi and
               Akinori Yonezawa},
  title     = {Building Linked Open Data towards integration of biomedical scientific
               literature with DBpedia},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {8},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-8},
  doi       = {10.1186/2041-1480-4-8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/YamamotoYY13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ZhangTHKL13,
  author    = {Yuji Zhang and
               Cui Tao and
               Yongqun He and
               Pradip Kanjamala and
               Hongfang Liu},
  title     = {Network-based analysis of vaccine-related associations reveals consistent
               knowledge with the vaccine ontology},
  journal   = {J. Biomed. Semant.},
  volume    = {4},
  pages     = {33},
  year      = {2013},
  url       = {https://doi.org/10.1186/2041-1480-4-33},
  doi       = {10.1186/2041-1480-4-33},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ZhangTHKL13.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BeckFTB12,
  author    = {Tim Beck and
               Robert C. Free and
               Gudmundur A. Thorisson and
               Anthony J. Brookes},
  title     = {Semantically enabling a genome-wide association study database},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  pages     = {9},
  year      = {2012},
  url       = {https://doi.org/10.1186/2041-1480-3-9},
  doi       = {10.1186/2041-1480-3-9},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BeckFTB12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BeisswangerH12,
  author    = {Elena Beisswanger and
               Udo Hahn},
  title     = {Towards valid and reusable reference alignments - ten basic quality
               checks for ontology alignments and their application to three different
               reference data sets},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  number    = {{S-1}},
  pages     = {S4},
  year      = {2012},
  url       = {http://www.jbiomedsem.com/content/3/S1/S4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BeisswangerH12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BettembourgDBD12,
  author    = {Charles Bettembourg and
               Christian Diot and
               Anita Burgun and
               Olivier Dameron},
  title     = {{GO2PUB:} Querying PubMed with semantic expansion of gene ontology
               terms},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  pages     = {7},
  year      = {2012},
  url       = {https://doi.org/10.1186/2041-1480-3-7},
  doi       = {10.1186/2041-1480-3-7},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BettembourgDBD12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/CiccareseOC12,
  author    = {Paolo Ciccarese and
               Marco Ocana and
               Tim Clark},
  title     = {Open semantic annotation of scientific publications using {DOMEO}},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  number    = {{S-1}},
  pages     = {S1},
  year      = {2012},
  url       = {http://www.jbiomedsem.com/content/3/S1/S1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/CiccareseOC12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ClematideR12,
  author    = {Simon Clematide and
               Fabio Rinaldi},
  title     = {Ranking relations between diseases, drugs and genes for a curation
               task},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  number    = {{S-3}},
  pages     = {S5},
  year      = {2012},
  url       = {http://www.jbiomedsem.com/content/3/S3/S5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ClematideR12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/DoganY12,
  author    = {Rezarta Islamaj Dogan and
               Lana Yeganova},
  title     = {Topics in machine learning for biomedical literature analysis and
               text retrieval},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  number    = {{S-3}},
  pages     = {S1},
  year      = {2012},
  url       = {http://www.jbiomedsem.com/content/3/S3/S1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/DoganY12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/DoulaverakisNKK12,
  author    = {Charalampos Doulaverakis and
               George Nikolaidis and
               Athanasios Kleontas and
               Ioannis Kompatsiaris},
  title     = {GalenOWL: Ontology based drug recommendations discovery},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  pages     = {14},
  year      = {2012},
  url       = {https://doi.org/10.1186/2041-1480-3-14},
  doi       = {10.1186/2041-1480-3-14},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/DoulaverakisNKK12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/GkoutosH12,
  author    = {Georgios V. Gkoutos and
               Robert Hoehndorf},
  title     = {Ontology-based cross-species integration and analysis of Saccharomyces
               cerevisiae phenotypes},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  number    = {{S-2}},
  pages     = {S6},
  year      = {2012},
  url       = {http://www.jbiomedsem.com/content/3/S2/S6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/GkoutosH12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/GoodCLS12,
  author    = {Benjamin M. Good and
               Erik L. Clarke and
               Salvatore Loguercio and
               Andrew I. Su},
  title     = {Linking genes to diseases with a SNPedia-Gene Wiki mashup},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  number    = {{S-1}},
  pages     = {S6},
  year      = {2012},
  url       = {http://www.jbiomedsem.com/content/3/S1/S6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/GoodCLS12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Grewe12,
  author    = {Niels Grewe},
  title     = {Continuation-like semantics for modeling structural process anomalies},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  number    = {{S-2}},
  pages     = {S8},
  year      = {2012},
  url       = {http://www.jbiomedsem.com/content/3/S2/S8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Grewe12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/GurulingappaRT12,
  author    = {Harsha Gurulingappa and
               Abdul Mateen Rajput and
               Luca Toldo},
  title     = {Extraction of Adverse Drug Effects from Medical Case Reports},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  pages     = {15},
  year      = {2012},
  url       = {https://doi.org/10.1186/2041-1480-3-15},
  doi       = {10.1186/2041-1480-3-15},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/GurulingappaRT12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HeTBTA12,
  author    = {Yongqun He and
               Luca Toldo and
               Gully Burns and
               Cui Tao and
               Darrell R. Abernethy},
  title     = {A 2012 Workshop: Vaccine and Drug Ontology in the Study of Mechanism
               and Effect {(VDOSME} 2012)},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  pages     = {12},
  year      = {2012},
  url       = {https://doi.org/10.1186/2041-1480-3-12},
  doi       = {10.1186/2041-1480-3-12},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HeTBTA12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HurOXH12,
  author    = {Junguk Hur and
               Arzucan {\"{O}}zg{\"{u}}r and
               Zuoshuang Xiang and
               Yongqun He},
  title     = {Identification of fever and vaccine-associated gene interaction networks
               using ontology-based literature mining},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  pages     = {18},
  year      = {2012},
  url       = {https://doi.org/10.1186/2041-1480-3-18},
  doi       = {10.1186/2041-1480-3-18},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HurOXH12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/JonnalagaddaPT12,
  author    = {Siddhartha Jonnalagadda and
               Ryan Peeler and
               Philip Topham},
  title     = {Discovering opinion leaders for medical topics using news articles},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  pages     = {2},
  year      = {2012},
  url       = {https://doi.org/10.1186/2041-1480-3-2},
  doi       = {10.1186/2041-1480-3-2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/JonnalagaddaPT12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/JuppSH12,
  author    = {Simon Jupp and
               Robert Stevens and
               Robert Hoehndorf},
  title     = {Logical Gene Ontology Annotations {(GOAL):} exploring gene ontology
               annotations with {OWL}},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  number    = {{S-1}},
  pages     = {S3},
  year      = {2012},
  url       = {http://www.jbiomedsem.com/content/3/S1/S3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/JuppSH12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Kate12,
  author    = {Rohit J. Kate},
  title     = {Unsupervised grammar induction of clinical report sublanguage},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  number    = {{S-3}},
  pages     = {S4},
  year      = {2012},
  url       = {http://www.jbiomedsem.com/content/3/S3/S4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Kate12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/KimW12,
  author    = {Sun Kim and
               W. John Wilbur},
  title     = {Thematic clustering of text documents using an EM-based approach},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  number    = {{S-3}},
  pages     = {S6},
  year      = {2012},
  url       = {http://www.jbiomedsem.com/content/3/S3/S6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/KimW12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/LePenduIFS12,
  author    = {Paea LePendu and
               Srinivasan Iyer and
               C{\'{e}}drick Fairon and
               Nigam H. Shah},
  title     = {Annotation Analysis for Testing Drug Safety Signals using Unstructured
               Clinical Notes},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  number    = {{S-1}},
  pages     = {S5},
  year      = {2012},
  url       = {http://www.jbiomedsem.com/content/3/S1/S5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/LePenduIFS12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/LinH12,
  author    = {Yu Lin and
               Yongqun He},
  title     = {Ontology representation and analysis of vaccine formulation and administration
               and their effects on vaccine immune responses},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  pages     = {17},
  year      = {2012},
  url       = {https://doi.org/10.1186/2041-1480-3-17},
  doi       = {10.1186/2041-1480-3-17},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/LinH12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/LiuCBV12,
  author    = {Haibin Liu and
               Tom Christiansen and
               William A. Baumgartner Jr. and
               Karin Verspoor},
  title     = {BioLemmatizer: a lemmatization tool for morphological processing of
               biomedical text},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  pages     = {3},
  year      = {2012},
  url       = {https://doi.org/10.1186/2041-1480-3-3},
  doi       = {10.1186/2041-1480-3-3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/LiuCBV12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/LoebeSHH12,
  author    = {Frank Loebe and
               Frank Stumpf and
               Robert Hoehndorf and
               Heinrich Herre},
  title     = {Towards improving phenotype representation in {OWL}},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  number    = {{S-2}},
  pages     = {S5},
  year      = {2012},
  url       = {http://www.jbiomedsem.com/content/3/S2/S5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/LoebeSHH12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/LopesO12,
  author    = {Pedro Lopes and
               Jos{\'{e}} Lu{\'{\i}}s Oliveira},
  title     = {{COEUS:} "semantic web in a box" for biomedical applications},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  pages     = {11},
  year      = {2012},
  url       = {https://doi.org/10.1186/2041-1480-3-11},
  doi       = {10.1186/2041-1480-3-11},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/LopesO12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/MeaS12,
  author    = {Vincenzo Della Mea and
               Andrea Simoncello},
  title     = {An ontology-based exploration of the concepts and relationships in
               the activities and participation component of the international classification
               of functioning, disability and health},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  pages     = {1},
  year      = {2012},
  url       = {https://doi.org/10.1186/2041-1480-3-1},
  doi       = {10.1186/2041-1480-3-1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/MeaS12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/MikroyannidiSIR12,
  author    = {Eleni Mikroyannidi and
               Robert Stevens and
               Luigi Iannone and
               Alan L. Rector},
  title     = {Analysing Syntactic Regularities and Irregularities in {SNOMED-CT}},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  pages     = {8},
  year      = {2012},
  url       = {https://doi.org/10.1186/2041-1480-3-8},
  doi       = {10.1186/2041-1480-3-8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/MikroyannidiSIR12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/OellrichGHR12,
  author    = {Anika Oellrich and
               Georgios V. Gkoutos and
               Robert Hoehndorf and
               Dietrich Rebholz{-}Schuhmann},
  title     = {Quantitative comparison of mapping methods between Human and Mammalian
               Phenotype Ontology},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  number    = {{S-2}},
  pages     = {S1},
  year      = {2012},
  url       = {http://www.jbiomedsem.com/content/3/S2/S1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/OellrichGHR12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ParikhZLSLTPSCBS12,
  author    = {Priti Parikh and
               Jie Zheng and
               Flora J. Logan{-}Klumpler and
               Christian J. Stoeckert Jr. and
               Christos Louis and
               Pantelis Topalis and
               Anna V. Protasio and
               Amit P. Sheth and
               Mark Carrington and
               Matthew Berriman and
               Satya Sanket Sahoo},
  title     = {The Ontology for Parasite Lifecycle {(OPL):} towards a consistent
               vocabulary of lifecycle stages in parasitic organisms},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  pages     = {5},
  year      = {2012},
  url       = {https://doi.org/10.1186/2041-1480-3-5},
  doi       = {10.1186/2041-1480-3-5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ParikhZLSLTPSCBS12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/PathakKBC12,
  author    = {Jyotishman Pathak and
               Richard C. Kiefer and
               Suzette J. Bielinski and
               Christopher G. Chute},
  title     = {Applying semantic web technologies for phenome-wide scan using an
               electronic health record linked Biobank},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  pages     = {10},
  year      = {2012},
  url       = {https://doi.org/10.1186/2041-1480-3-10},
  doi       = {10.1186/2041-1480-3-10},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/PathakKBC12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/RavikumarLCWV12,
  author    = {K. E. Ravikumar and
               Haibin Liu and
               Judith D. Cohn and
               Michael E. Wall and
               Karin Verspoor},
  title     = {Literature mining of protein-residue associations with graph rules
               learned through distant supervision},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  number    = {{S-3}},
  pages     = {S2},
  year      = {2012},
  url       = {http://www.jbiomedsem.com/content/3/S3/S2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/RavikumarLCWV12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Rohl12,
  author    = {Johannes R{\"{o}}hl},
  title     = {Mechanisms in biomedical ontology},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  number    = {{S-2}},
  pages     = {S9},
  year      = {2012},
  url       = {http://www.jbiomedsem.com/content/3/S2/S9},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Rohl12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SamadianMW12,
  author    = {Soroush Samadian and
               Bruce McManus and
               Mark D. Wilkinson},
  title     = {Extending and encoding existing biological terminologies and datasets
               for use in the reasoned semantic web},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  pages     = {6},
  year      = {2012},
  url       = {https://doi.org/10.1186/2041-1480-3-6},
  doi       = {10.1186/2041-1480-3-6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SamadianMW12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SantanaFFMS12,
  author    = {Filipe Santana and
               Fred Freitas and
               Roberta Fernandes and
               Zulma Medeiros and
               Daniel Schober},
  title     = {Towards an ontological representation of morbidity and mortality in
               Description Logics},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  number    = {{S-2}},
  pages     = {S7},
  year      = {2012},
  url       = {http://www.jbiomedsem.com/content/3/S2/S7},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SantanaFFMS12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SchoberTSB12,
  author    = {Daniel Schober and
               Ilinca Tudose and
               Vojtech Sv{\'{a}}tek and
               Martin Boeker},
  title     = {OntoCheck: verifying ontology naming conventions and metadata completeness
               in Prot{\'{e}}g{\'{e}} 4},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  number    = {{S-2}},
  pages     = {S4},
  year      = {2012},
  url       = {http://www.jbiomedsem.com/content/3/S2/S4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SchoberTSB12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Seddig-RaufieJSBGS12,
  author    = {Djamila Seddig{-}Raufie and
               Ludger Jansen and
               Daniel Schober and
               Martin Boeker and
               Niels Grewe and
               Stefan Schulz},
  title     = {Proposed actions are no actions: re-modeling an ontology design pattern
               with a realist top-level ontology},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  number    = {{S-2}},
  pages     = {S2},
  year      = {2012},
  url       = {http://www.jbiomedsem.com/content/3/S2/S2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Seddig-RaufieJSBGS12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SojicK12,
  author    = {Aleksandra Sojic and
               Oliver Kutz},
  title     = {Open biomedical pluralism: formalising knowledge about breast cancer
               phenotypes},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  number    = {{S-2}},
  pages     = {S3},
  year      = {2012},
  url       = {http://www.jbiomedsem.com/content/3/S2/S3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SojicK12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SoldatovaSDS12,
  author    = {Larisa N. Soldatova and
               Susanna{-}Assunta Sansone and
               Michel Dumontier and
               Nigam H. Shah},
  title     = {Selected papers from the 14th Annual Bio-Ontologies Special Interest
               Group Meeting},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  number    = {{S-1}},
  pages     = {I1},
  year      = {2012},
  url       = {http://www.jbiomedsem.com/content/3/S1/I1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SoldatovaSDS12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/TaoHYGC12,
  author    = {Cui Tao and
               Yongqun He and
               Hannah Yang and
               Gregory A. Poland and
               Christopher G. Chute},
  title     = {Ontology-based time information representation of vaccine adverse
               events in {VAERS} for temporal analysis},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  pages     = {13},
  year      = {2012},
  url       = {https://doi.org/10.1186/2041-1480-3-13},
  doi       = {10.1186/2041-1480-3-13},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/TaoHYGC12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/TcheremenskaiaBNJEB0PLRH12,
  author    = {Olga Tcheremenskaia and
               Romualdo Benigni and
               Ivelina Nikolova and
               Nina Jeliazkova and
               Sylvia Escher and
               Monika Batke and
               Thomas Baier and
               Vladimir Poroikov and
               Alexey Lagunin and
               Micha Rautenberg and
               Barry J. Hardy},
  title     = {OpenTox predictive toxicology framework: toxicological ontology and
               semantic media wiki-based OpenToxipedia},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  number    = {{S-1}},
  pages     = {S7},
  year      = {2012},
  url       = {http://www.jbiomedsem.com/content/3/S1/S7},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/TcheremenskaiaBNJEB0PLRH12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/TsatsaronisMTDS12,
  author    = {George Tsatsaronis and
               Natalia Macari and
               Sunna Torge and
               Heiko Dietze and
               Michael Schroeder},
  title     = {A Maximum-Entropy approach for accurate document annotation in the
               biomedical domain},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  number    = {{S-1}},
  pages     = {S2},
  year      = {2012},
  url       = {http://www.jbiomedsem.com/content/3/S1/S2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/TsatsaronisMTDS12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/WhitehurstSLHCF12,
  author    = {Julie M. Whitehurst and
               John Schroder and
               Dave Leonard and
               Monica M. Horvath and
               Heidi B. Cozart and
               Jeffrey M. Ferranti},
  title     = {Towards the creation of a flexible classification scheme for voluntarily
               reported transfusion and laboratory safety events},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  pages     = {4},
  year      = {2012},
  url       = {https://doi.org/10.1186/2041-1480-3-4},
  doi       = {10.1186/2041-1480-3-4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/WhitehurstSLHCF12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/YeganovaKCW12,
  author    = {Lana Yeganova and
               Won Kim and
               Donald C. Comeau and
               W. John Wilbur},
  title     = {Finding biomedical categories in Medline\({}^{\mbox{{\textregistered}}}\)},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  number    = {{S-3}},
  pages     = {S3},
  year      = {2012},
  url       = {http://www.jbiomedsem.com/content/3/S3/S3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/YeganovaKCW12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ZhuJC12,
  author    = {Qian Zhu and
               Guoqian Jiang and
               Christopher G. Chute},
  title     = {Profiling structured product labeling with {NDF-RT} and RxNorm},
  journal   = {J. Biomed. Semant.},
  volume    = {3},
  pages     = {16},
  year      = {2012},
  url       = {https://doi.org/10.1186/2041-1480-3-16},
  doi       = {10.1186/2041-1480-3-16},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ZhuJC12.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/AbachaZ11,
  author    = {Asma Ben Abacha and
               Pierre Zweigenbaum},
  title     = {Automatic extraction of semantic relations between medical entities:
               a rule based approach},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-5}},
  pages     = {S4},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S5/S4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/AbachaZ11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/AfzalESN11,
  author    = {Hammad Afzal and
               James M. Eales and
               Robert Stevens and
               Goran Nenadic},
  title     = {Mining semantic networks of bioinformatics e-resources from the literature},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-1}},
  pages     = {S4},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S1/S4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/AfzalESN11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/AllvinCDDDHKLNNSSSV11,
  author    = {Helen Allvin and
               Elin Carlsson and
               Hercules Dalianis and
               Riitta Danielsson{-}Ojala and
               Vidas Daudaravicius and
               Martin Hassel and
               Dimitrios Kokkinakis and
               Helj{\"{a}} Lundgr{\'{e}}n{-}Laine and
               Gunnar H. Nilsson and
               {\O}ystein Nytr{\o} and
               Sanna Salanter{\"{a}} and
               Maria Skeppstedt and
               Hanna Suominen and
               Sumithra Velupillai},
  title     = {Characteristics of Finnish and Swedish intensive care nursing narratives:
               a comparative analysis to support the development of clinical language
               technologies},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-3}},
  pages     = {S1},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S3/S1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/AllvinCDDDHKLNNSSSV11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/AlvarezQY11,
  author    = {Marco A. Alvarez and
               Xiaojun Qi and
               Changhui Yan},
  title     = {A shortest-path graph kernel for estimating gene product semantic
               similarity},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  pages     = {3},
  year      = {2011},
  url       = {https://doi.org/10.1186/2041-1480-2-3},
  doi       = {10.1186/2041-1480-2-3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/AlvarezQY11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/CallahanDS11,
  author    = {Alison Callahan and
               Michel Dumontier and
               Nigam H. Shah},
  title     = {HyQue: evaluating hypotheses using Semantic Web technologies},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-2}},
  pages     = {S3},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S2/S3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/CallahanDS11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/CiccareseOGDC11,
  author    = {Paolo Ciccarese and
               Marco Ocana and
               Leyla Jael Garc{\'{\i}}a{-}Castro and
               Sudeshna Das and
               Tim Clark},
  title     = {An open annotation ontology for science on web 3.0},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-2}},
  pages     = {S4},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S2/S4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/CiccareseOGDC11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Collier11,
  author    = {Nigel Collier},
  title     = {Towards cross-lingual alerting for bursty epidemic events},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-5}},
  pages     = {S10},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S5/S10},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Collier11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/CollierSN11,
  author    = {Nigel Collier and
               Nguyen Truong Son and
               Ngoc Mai Nguyen},
  title     = {{OMG} {U} got flu? Analysis of shared health messages for bio-surveillance},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-5}},
  pages     = {S9},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S5/S9},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/CollierSN11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/CouletGDAMS11,
  author    = {Adrien Coulet and
               Yael Garten and
               Michel Dumontier and
               Russ B. Altman and
               Mark A. Musen and
               Nigam H. Shah},
  title     = {Integration and publication of heterogeneous text-mined relationships
               on the Semantic Web},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-2}},
  pages     = {S10},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S2/S10},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/CouletGDAMS11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/CoutoS11,
  author    = {Francisco M. Couto and
               M{\'{a}}rio J. Silva},
  title     = {Disjunctive shared information between ontology concepts: application
               to Gene Ontology},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  pages     = {5},
  year      = {2011},
  url       = {https://doi.org/10.1186/2041-1480-2-5},
  doi       = {10.1186/2041-1480-2-5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/CoutoS11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/DalianisHV11,
  author    = {Hercules Dalianis and
               Martin Hassel and
               Sumithra Velupillai},
  title     = {Louhi 2010: Special issue on Text and Data Mining of Health Documents},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-3}},
  pages     = {I1},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S3/I1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/DalianisHV11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/GhazvinianNM11,
  author    = {Amir Ghazvinian and
               Natalya Fridman Noy and
               Mark A. Musen},
  title     = {How orthogonal are the {OBO} Foundry ontologies?},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-2}},
  pages     = {S2},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S2/S2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/GhazvinianNM11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HalgrimXSCU11,
  author    = {Scott R. Halgrim and
               Fei Xia and
               Imre Solti and
               Eithon Cadag and
               {\"{O}}zlem Uzuner},
  title     = {A cascade of classifiers for extracting medication information from
               discharge summaries},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-3}},
  pages     = {S2},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S3/S2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HalgrimXSCU11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Heppin11,
  author    = {Karin Heppin},
  title     = {MedEval - {A} Swedish medical test collection with doctors and patients
               user groups},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-3}},
  pages     = {S4},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S3/S4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Heppin11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HerreHKLS11,
  author    = {Heinrich Herre and
               Robert Hoehndorf and
               Janet Kelso and
               Frank Loebe and
               Stefan Schulz},
  title     = {{OBML} - Ontologies in Biomedicine and Life Sciences},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-4}},
  pages     = {I1},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S4/I1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HerreHKLS11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HeymansMP11,
  author    = {Stijn Heymans and
               Matthew McKennirey and
               Joshua Phillips},
  title     = {Semantic validation of the use of {SNOMED} {CT} in {HL7} clinical
               documents},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  pages     = {2},
  year      = {2011},
  url       = {https://doi.org/10.1186/2041-1480-2-2},
  doi       = {10.1186/2041-1480-2-2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HeymansMP11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HoehndorfNPOOR11,
  author    = {Robert Hoehndorf and
               Axel{-}Cyrille Ngonga Ngomo and
               Sampo Pyysalo and
               Tomoko Ohta and
               Anika Oellrich and
               Dietrich Rebholz{-}Schuhmann},
  title     = {Ontology design patterns to disambiguate relations between genes and
               gene products in {GENIA}},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-5}},
  pages     = {S1},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S5/S1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HoehndorfNPOOR11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/JansenS11,
  author    = {Ludger Jansen and
               Stefan Schulz},
  title     = {Grains, components and mixtures in biomedical ontologies},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-4}},
  pages     = {S2},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S4/S2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/JansenS11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Jimenez-RuizGHL11,
  author    = {Ernesto Jim{\'{e}}nez{-}Ruiz and
               Bernardo Cuenca Grau and
               Ian Horrocks and
               Rafael Berlanga Llavori},
  title     = {Logic-based assessment of the compatibility of {UMLS} ontology sources},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-1}},
  pages     = {S2},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S1/S2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Jimenez-RuizGHL11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/JonesWO11,
  author    = {Andrew C. Jones and
               Richard J. White and
               Ewen R. Orme},
  title     = {Identifying and relating biological concepts in the Catalogue of Life},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  pages     = {7},
  year      = {2011},
  url       = {https://doi.org/10.1186/2041-1480-2-7},
  doi       = {10.1186/2041-1480-2-7},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/JonesWO11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/JuppKSS11,
  author    = {Simon Jupp and
               Julie Klein and
               Joost Schanstra and
               Robert Stevens},
  title     = {Developing a kidney and urinary pathway knowledge base},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-2}},
  pages     = {S7},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S2/S7},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/JuppKSS11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/KatayamaWV11,
  author    = {Toshiaki Katayama and
               Mark D. Wilkinson and
               Rutger A. Vos and
               Takeshi Kawashima and
               Shuichi Kawashima and
               Mitsuteru Nakao and
               Yasunori Yamamoto and
               Hong{-}Woo Chun and
               Atsuko Yamaguchi and
               Shin Kawano and
               Jan Aerts and
               Kiyoko F. Aoki{-}Kinoshita and
               Kazuharu Arakawa and
               Bruno Aranda and
               Raoul Jean Pierre Bonnal and
               Jos{\'{e}} Mar{\'{\i}}a Fern{\'{a}}ndez and
               Takatomo Fujisawa and
               Paul M. K. Gordon and
               Naohisa Goto and
               Syed Haider and
               Todd W. Harris and
               Takashi Hatakeyama and
               Isaac Ho and
               Masumi Itoh and
               Arek Kasprzyk and
               Nobuhiro Kido and
               Young{-}Joo Kim and
               Akira R. Kinjo and
               Fumikazu Konishi and
               Yulia Kovarskaya and
               Gregory Von Kuster and
               Alberto Labarga and
               Vachiranee Limviphuvadh and
               E. Luke McCarthy and
               Yasukazu Nakamura and
               Yunsun Nam and
               Kozo Nishida and
               Kunihiro Nishimura and
               Tatsuya Nishizawa and
               Soichi Ogishima and
               Tom Oinn and
               Shinobu Okamoto and
               Shujiro Okuda and
               Keiichiro Ono and
               Kazuki Oshita and
               Keun{-}Joon Park and
               Nicholas H. Putnam and
               Martin Senger and
               Jessica Severin and
               Yasumasa Shigemoto and
               Hideaki Sugawara and
               James Taylor and
               Oswaldo Trelles and
               Chisato Yamasaki and
               Riu Yamashita and
               Noriyuki Satoh and
               Toshihisa Takagi},
  title     = {The 2nd {DBCLS} BioHackathon: interoperable bioinformatics Web services
               for integrated applications},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  pages     = {4},
  year      = {2011},
  url       = {https://doi.org/10.1186/2041-1480-2-4},
  doi       = {10.1186/2041-1480-2-4},
  timestamp = {Sat, 05 Sep 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/KatayamaWV11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/KimR11,
  author    = {Jung{-}jae Kim and
               Dietrich Rebholz{-}Schuhmann},
  title     = {Improving the extraction of complex regulatory events from scientific
               text by using ontology-based inference},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-5}},
  pages     = {S3},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S5/S3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/KimR11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/KirstenGHR11,
  author    = {Toralf Kirsten and
               Anika Gro{\ss} and
               Michael Hartung and
               Erhard Rahm},
  title     = {{GOMMA:} a component-based infrastructure for managing and analyzing
               life science ontologies and their evolution},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  pages     = {6},
  year      = {2011},
  url       = {https://doi.org/10.1186/2041-1480-2-6},
  doi       = {10.1186/2041-1480-2-6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/KirstenGHR11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/LamprechtNMS11,
  author    = {Anna{-}Lena Lamprecht and
               Stefan Naujokat and
               Tiziana Margaria and
               Bernhard Steffen},
  title     = {Semantics-based composition of {EMBOSS} services},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-1}},
  pages     = {S5},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S1/S5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/LamprechtNMS11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/LinXH11,
  author    = {Yu Lin and
               Zuoshuang Xiang and
               Yongqun He},
  title     = {Brucellosis Ontology {(IDOBRU)} as an extension of the Infectious
               Disease Ontology},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  pages     = {9},
  year      = {2011},
  url       = {https://doi.org/10.1186/2041-1480-2-9},
  doi       = {10.1186/2041-1480-2-9},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/LinXH11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/LucianoABBCDDGHJKKKLMMMOPPPSSTWZSD11,
  author    = {Joanne S. Luciano and
               Bosse Andersson and
               Colin R. Batchelor and
               Olivier Bodenreider and
               Tim Clark and
               Christine K. Denney and
               Christopher Domarew and
               Thomas Gambet and
               Lee Harland and
               Anja Jentzsch and
               Vipul Kashyap and
               Peter J. Kos and
               Julia Kozlovsky and
               Timothy Lebo and
               M. Scott Marshall and
               James P. McCusker and
               Deborah L. McGuinness and
               Chimezie Ogbuji and
               Elgar Pichler and
               Robert L. Powers and
               Eric Prud'hommeaux and
               Matthias Samwald and
               Lynn M. Schriml and
               Peter J. Tonellato and
               Patricia L. Whetzel and
               Jun Zhao and
               Susie Stephens and
               Michel Dumontier},
  title     = {The Translational Medicine Ontology and Knowledge Base: driving personalized
               medicine by bridging the gap between bench and bedside},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-2}},
  pages     = {S1},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S2/S1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/LucianoABBCDDGHJKKKLMMMOPPPSSTWZSD11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Martin11,
  author    = {Melanie J. Martin},
  title     = {Reliability and type of consumer health documents on the World Wide
               Web: an annotation study},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-3}},
  pages     = {S5},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S3/S5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Martin11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/OhtaPMT11,
  author    = {Tomoko Ohta and
               Sampo Pyysalo and
               Makoto Miwa and
               Jun'ichi Tsujii},
  title     = {Event extraction for {DNA} methylation},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-5}},
  pages     = {S2},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S5/S2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/OhtaPMT11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/OzgurXRH11,
  author    = {Arzucan {\"{O}}zg{\"{u}}r and
               Zuoshuang Xiang and
               Dragomir R. Radev and
               Yongqun He},
  title     = {Mining of vaccine-associated IFN-{\(\gamma\)} gene interaction networks
               using the Vaccine Ontology},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-2}},
  pages     = {S8},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S2/S8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/OzgurXRH11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/PolajnarDG11,
  author    = {Tamara Polajnar and
               Theodoros Damoulas and
               Mark A. Girolami},
  title     = {Protein interaction sentence detection using multiple semantic kernels},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  pages     = {1},
  year      = {2011},
  url       = {https://doi.org/10.1186/2041-1480-2-1},
  doi       = {10.1186/2041-1480-2-1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/PolajnarDG11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/PyysaloOT11,
  author    = {Sampo Pyysalo and
               Tomoko Ohta and
               Jun'ichi Tsujii},
  title     = {An analysis of gene/protein associations at PubMed scale},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-5}},
  pages     = {S5},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S5/S5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/PyysaloOT11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Rebholz-SchuhmannJL11,
  author    = {Dietrich Rebholz{-}Schuhmann and
               Antonio Jimeno{-}Yepes and
               Chen Li and
               Senay Kafkas and
               Ian Lewin and
               Ning Kang and
               Peter T. Corbett and
               David Milward and
               Ekaterina Buyko and
               Elena Beisswanger and
               Kerstin Hornbostel and
               Alexandre Kouznetsov and
               Ren{\'{e}} Witte and
               Jonas B. Laurila and
               Christopher J. O. Baker and
               Cheng{-}Ju Kuo and
               Simon Clematide and
               Fabio Rinaldi and
               Rich{\'{a}}rd Farkas and
               Gy{\"{o}}rgy M{\'{o}}ra and
               Kazuo Hara and
               Laura In{\'{e}}s Furlong and
               Michael Rautschka and
               Mariana L. Neves and
               Alberto D. Pascual{-}Montano and
               Qi Wei and
               Nigel Collier and
               Md. Faisal Mahbub Chowdhury and
               Alberto Lavelli and
               Rafael Berlanga Llavori and
               Roser Morante and
               Vincent Van Asch and
               Walter Daelemans and
               Jos{\'{e}} Lu{\'{\i}}s Marina and
               Erik M. van Mulligen and
               Jan A. Kors and
               Udo Hahn},
  title     = {Assessment of {NER} solutions against the first and second {CALBC}
               Silver Standard Corpus},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-5}},
  pages     = {S11},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S5/S11},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Rebholz-SchuhmannJL11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Rebholz-SchuhmannRPCH11,
  author    = {Dietrich Rebholz{-}Schuhmann and
               Fabio Rinaldi and
               Sampo Pyysalo and
               Nigel Collier and
               Udo Hahn},
  title     = {Towards mature use of semantic resources for biomedical analyses},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-5}},
  pages     = {I1},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S5/I1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Rebholz-SchuhmannRPCH11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/RohlJ11,
  author    = {Johannes R{\"{o}}hl and
               Ludger Jansen},
  title     = {Representing dispositions},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-4}},
  pages     = {S4},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S4/S4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/RohlJ11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SchulzSJCB11,
  author    = {Stefan Schulz and
               Kent A. Spackman and
               Andrew G. James and
               Cristian Cocos and
               Martin Boeker},
  title     = {Scalable representations of diseases in biomedical ontologies},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-2}},
  pages     = {S6},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S2/S6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SchulzSJCB11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Skeppstedt11,
  author    = {Maria Skeppstedt},
  title     = {Negation detection in Swedish clinical text: An adaption of NegEx
               to Swedish},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-3}},
  pages     = {S3},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S3/S3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Skeppstedt11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SoldatovaR11,
  author    = {Larisa N. Soldatova and
               Andrey Rzhetsky},
  title     = {Representation of research hypotheses},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-2}},
  pages     = {S9},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S2/S9},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SoldatovaR11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SoldatovaSSS11,
  author    = {Larisa N. Soldatova and
               Susanna{-}Assunta Sansone and
               Susie Stephens and
               Nigam H. Shah},
  title     = {Selected papers from the 13th Annual Bio-Ontologies Special Interest
               Group Meeting},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-2}},
  pages     = {I1},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S2/I1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SoldatovaSSS11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SplendianiBP0M11,
  author    = {Andrea Splendiani and
               Albert Burger and
               Adrian Paschke and
               Paolo Romano and
               M. Scott Marshall},
  title     = {Biomedical semantics in the Semantic Web},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-1}},
  pages     = {S1},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S1/S1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SplendianiBP0M11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/StevensMWPT11,
  author    = {Robert Stevens and
               James Malone and
               Sandra Williams and
               Richard Power and
               Allan Third},
  title     = {Automating generation of textual class definitions from {OWL} to English},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-2}},
  pages     = {S5},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S2/S5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/StevensMWPT11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/TirmiziAMMSSM11,
  author    = {Syed Hamid Tirmizi and
               Stuart Aitken and
               Dilvan A. Moreira and
               Chris Mungall and
               Juan F. Sequeda and
               Nigam H. Shah and
               Daniel P. Miranker},
  title     = {Mapping between the {OBO} and {OWL} ontology languages},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-1}},
  pages     = {S3},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S1/S3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/TirmiziAMMSSM11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/TravillianABGHMMSP11,
  author    = {Ravensara S. Travillian and
               Tomasz Adamusiak and
               Tony Burdett and
               Michael Gruenberger and
               John M. Hancock and
               Ann{-}Marie Mallon and
               James Malone and
               Paul N. Schofield and
               Helen E. Parkinson},
  title     = {Anatomy ontologies and potential users: bridging the gap},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-4}},
  pages     = {S3},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S4/S3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/TravillianABGHMMSP11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/UciteliGKH11,
  author    = {Alexandr Uciteli and
               Silvia Gro{\ss} and
               Sergej Kireyev and
               Heinrich Herre},
  title     = {An ontologically founded architecture for information systems in clinical
               and epidemiological research},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-4}},
  pages     = {S1},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S4/S1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/UciteliGKH11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Velldal11,
  author    = {Erik Velldal},
  title     = {Predicting speculation: a simple disambiguation approach to hedge
               detection in biomedical literature},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-5}},
  pages     = {S7},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S5/S7},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Velldal11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/VinczeSMOF11,
  author    = {Veronika Vincze and
               Gy{\"{o}}rgy Szarvas and
               Gy{\"{o}}rgy M{\'{o}}ra and
               Tomoko Ohta and
               Rich{\'{a}}rd Farkas},
  title     = {Linguistic scope-based and biological event-based speculation and
               negation annotations in the BioScope and Genia Event corpora},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-5}},
  pages     = {S8},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S5/S8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/VinczeSMOF11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/WilkinsonVM11,
  author    = {Mark D. Wilkinson and
               Benjamin P. Vandervalk and
               E. Luke McCarthy},
  title     = {The Semantic Automated Discovery and Integration {(SADI)} Web service
               Design-Pattern, {API} and Reference Implementation},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  pages     = {8},
  year      = {2011},
  url       = {https://doi.org/10.1186/2041-1480-2-8},
  doi       = {10.1186/2041-1480-2-8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/WilkinsonVM11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/WillighagenAAELLSW11,
  author    = {Egon L. Willighagen and
               Jonathan Alvarsson and
               Annsofie Andersson and
               Martin Eklund and
               Samuel Lampa and
               Maris Lapins and
               Ola Spjuth and
               Jarl E. S. Wikberg},
  title     = {Linking the Resource Description Framework to cheminformatics and
               proteochemometrics},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-1}},
  pages     = {S6},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S1/S6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/WillighagenAAELLSW11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/YoshikawaRHAM11,
  author    = {Katsumasa Yoshikawa and
               Sebastian Riedel and
               Tsutomu Hirao and
               Masayuki Asahara and
               Yuji Matsumoto},
  title     = {Coreference based event-argument relation extraction on biomedical
               text},
  journal   = {J. Biomed. Semant.},
  volume    = {2},
  number    = {{S-5}},
  pages     = {S6},
  year      = {2011},
  url       = {http://www.jbiomedsem.com/content/2/S5/S6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/YoshikawaRHAM11.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/BrinkmanCDFHLMPPRRSSSTZa10,
  author    = {Ryan Remy Brinkman and
               M{\'{e}}lanie Courtot and
               Dirk Derom and
               Jennifer Fostel and
               Yongqun He and
               Phillip W. Lord and
               James Malone and
               Helen E. Parkinson and
               Bj{\"{o}}rn Peters and
               Philippe Rocca{-}Serra and
               Alan Ruttenberg and
               Susanna{-}Assunta Sansone and
               Larisa N. Soldatova and
               Christian J. Stoeckert Jr. and
               Jessica A. Turner and
               Jie Zheng and
               et al.},
  title     = {Modeling biomedical experimental processes with {OBI}},
  journal   = {J. Biomed. Semant.},
  volume    = {1},
  number    = {{S-1}},
  pages     = {S7},
  year      = {2010},
  url       = {http://www.jbiomedsem.com/content/1/S1/S7},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/BrinkmanCDFHLMPPRRSSSTZa10.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/CeustersS10,
  author    = {Werner Ceusters and
               Barry Smith},
  title     = {Foundations for a realist ontology of mental disease},
  journal   = {J. Biomed. Semant.},
  volume    = {1},
  pages     = {10},
  year      = {2010},
  url       = {https://doi.org/10.1186/2041-1480-1-10},
  doi       = {10.1186/2041-1480-1-10},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/CeustersS10.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ChanlekhaC10,
  author    = {Hutchatai Chanlekha and
               Nigel Collier},
  title     = {Analysis of syntactic and semantic features for fine-grained event-spatial
               understanding in outbreak news reports},
  journal   = {J. Biomed. Semant.},
  volume    = {1},
  pages     = {3},
  year      = {2010},
  url       = {https://doi.org/10.1186/2041-1480-1-3},
  doi       = {10.1186/2041-1480-1-3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ChanlekhaC10.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Collier10,
  author    = {Nigel Collier},
  title     = {What's unusual in online disease outbreak news?},
  journal   = {J. Biomed. Semant.},
  volume    = {1},
  pages     = {2},
  year      = {2010},
  url       = {https://doi.org/10.1186/2041-1480-1-2},
  doi       = {10.1186/2041-1480-1-2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Collier10.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Cruz-ToledoDPM10,
  author    = {Jose Cruz{-}Toledo and
               Michel Dumontier and
               Marc Parisien and
               Fran{\c{c}}ois Major},
  title     = {{RKB:} a Semantic Web knowledge base for {RNA}},
  journal   = {J. Biomed. Semant.},
  volume    = {1},
  number    = {{S-1}},
  pages     = {S2},
  year      = {2010},
  url       = {http://www.jbiomedsem.com/content/1/S1/S2},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Cruz-ToledoDPM10.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/DalianisV10,
  author    = {Hercules Dalianis and
               Sumithra Velupillai},
  title     = {De-identifying Swedish clinical text - refinement of a gold standard
               and experiments with Conditional random fields},
  journal   = {J. Biomed. Semant.},
  volume    = {1},
  pages     = {6},
  year      = {2010},
  url       = {https://doi.org/10.1186/2041-1480-1-6},
  doi       = {10.1186/2041-1480-1-6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/DalianisV10.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HettneMSSK10,
  author    = {Kristina M. Hettne and
               Erik M. van Mulligen and
               Martijn J. Schuemie and
               Bob J. A. Schijvenaars and
               Jan A. Kors},
  title     = {Rewriting and suppressing {UMLS} terms for improved biomedical term
               identification},
  journal   = {J. Biomed. Semant.},
  volume    = {1},
  pages     = {5},
  year      = {2010},
  url       = {https://doi.org/10.1186/2041-1480-1-5},
  doi       = {10.1186/2041-1480-1-5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HettneMSSK10.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/HoehndorfNK10,
  author    = {Robert Hoehndorf and
               Axel{-}Cyrille Ngonga Ngomo and
               Janet Kelso},
  title     = {Applying the functional abnormality ontology pattern to anatomical
               functions},
  journal   = {J. Biomed. Semant.},
  volume    = {1},
  pages     = {4},
  year      = {2010},
  url       = {https://doi.org/10.1186/2041-1480-1-4},
  doi       = {10.1186/2041-1480-1-4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/HoehndorfNK10.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/JonquetMS10,
  author    = {Cl{\'{e}}ment Jonquet and
               Mark A. Musen and
               Nigam H. Shah},
  title     = {Building a biomedical ontology recommender web service},
  journal   = {J. Biomed. Semant.},
  volume    = {1},
  number    = {{S-1}},
  pages     = {S1},
  year      = {2010},
  url       = {http://www.jbiomedsem.com/content/1/S1/S1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/JonquetMS10.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/KatayamaAN10,
  author    = {Toshiaki Katayama and
               Kazuharu Arakawa and
               Mitsuteru Nakao and
               Keiichiro Ono and
               Kiyoko F. Aoki{-}Kinoshita and
               Yasunori Yamamoto and
               Atsuko Yamaguchi and
               Shuichi Kawashima and
               Hong{-}Woo Chun and
               Jan Aerts and
               Bruno Aranda and
               Lord H. Barboza and
               Raoul Jean Pierre Bonnal and
               Richard M. Bruskiewich and
               Jan Christian Bryne and
               Jos{\'{e}} Mar{\'{\i}}a Fern{\'{a}}ndez and
               Akira Funahashi and
               Paul M. K. Gordon and
               Naohisa Goto and
               Andreas Groscurth and
               Alex Gutteridge and
               Richard C. G. Holland and
               Yoshinobu Kano and
               Edward A. Kawas and
               Arnaud Kerhornou and
               Eri Kibukawa and
               Akira R. Kinjo and
               Michael Kuhn and
               Hilmar Lapp and
               Heikki Lehv{\"{a}}slaiho and
               Hiroyuki Nakamura and
               Yasukazu Nakamura and
               Tatsuya Nishizawa and
               Chikashi Nobata and
               Tamotsu Noguchi and
               Thomas M. Oinn and
               Shinobu Okamoto and
               Stuart Owen and
               Evangelos Pafilis and
               Matthew R. Pocock and
               Pjotr Prins and
               Ren{\'{e}} Ranzinger and
               Florian Reisinger and
               Lukasz Salw{\'{\i}}nski and
               Mark J. Schreiber and
               Martin Senger and
               Yasumasa Shigemoto and
               Daron M. Standley and
               Hideaki Sugawara and
               Toshiyuki Tashiro and
               Oswaldo Trelles and
               Rutger A. Vos and
               Mark D. Wilkinson and
               William S. York and
               Christian M. Zmasek and
               Kiyoshi Asai and
               Toshihisa Takagi},
  title     = {The {DBCLS} BioHackathon: standardization and interoperability for
               bioinformatics web services and workflows},
  journal   = {J. Biomed. Semant.},
  volume    = {1},
  pages     = {8},
  year      = {2010},
  url       = {https://doi.org/10.1186/2041-1480-1-8},
  doi       = {10.1186/2041-1480-1-8},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/KatayamaAN10.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ListerLPW10,
  author    = {Allyson L. Lister and
               Phillip W. Lord and
               Matthew R. Pocock and
               Anil Wipat},
  title     = {Annotation of {SBML} models through rule-based semantic integration},
  journal   = {J. Biomed. Semant.},
  volume    = {1},
  number    = {{S-1}},
  pages     = {S3},
  year      = {2010},
  url       = {http://www.jbiomedsem.com/content/1/S1/S3},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/ListerLPW10.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Lord10,
  author    = {Phillip W. Lord},
  title     = {An evolutionary approach to Function},
  journal   = {J. Biomed. Semant.},
  volume    = {1},
  number    = {{S-1}},
  pages     = {S4},
  year      = {2010},
  url       = {http://www.jbiomedsem.com/content/1/S1/S4},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Lord10.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/NguyenTL10,
  author    = {Quang Long Nguyen and
               Domonkos Tikk and
               Ulf Leser},
  title     = {Simple tricks for improving pattern-based information extraction from
               the biomedical literature},
  journal   = {J. Biomed. Semant.},
  volume    = {1},
  pages     = {9},
  year      = {2010},
  url       = {https://doi.org/10.1186/2041-1480-1-9},
  doi       = {10.1186/2041-1480-1-9},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/NguyenTL10.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/NystromVNAO10,
  author    = {Mikael Nystr{\"{o}}m and
               Anna Vikstr{\"{o}}m and
               Gunnar H. Nilsson and
               Hans {\AA}hlfeldt and
               H{\aa}kan {\"{O}}rman},
  title     = {Enriching a primary health care version of {ICD-10} using {SNOMED}
               {CT} mapping},
  journal   = {J. Biomed. Semant.},
  volume    = {1},
  pages     = {7},
  year      = {2010},
  url       = {https://doi.org/10.1186/2041-1480-1-7},
  doi       = {10.1186/2041-1480-1-7},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/NystromVNAO10.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Rebholz-SchuhmannN10,
  author    = {Dietrich Rebholz{-}Schuhmann and
               Goran Nenadic},
  title     = {Biomedical Semantics: the Hub for Biomedical Research 2.0},
  journal   = {J. Biomed. Semant.},
  volume    = {1},
  pages     = {1},
  year      = {2010},
  url       = {https://doi.org/10.1186/2041-1480-1-1},
  doi       = {10.1186/2041-1480-1-1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Rebholz-SchuhmannN10.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SamwaldS10,
  author    = {Matthias Samwald and
               Holger Stenzhorn},
  title     = {Establishing a distributed system for the simple representation and
               integration of diverse scientific assertions},
  journal   = {J. Biomed. Semant.},
  volume    = {1},
  number    = {{S-1}},
  pages     = {S5},
  year      = {2010},
  url       = {http://www.jbiomedsem.com/content/1/S1/S5},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SamwaldS10.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/Shotton10,
  author    = {David M. Shotton},
  title     = {CiTO, the Citation Typing Ontology},
  journal   = {J. Biomed. Semant.},
  volume    = {1},
  number    = {{S-1}},
  pages     = {S6},
  year      = {2010},
  url       = {http://www.jbiomedsem.com/content/1/S1/S6},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/Shotton10.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SoldatovaLSSS10,
  author    = {Larisa N. Soldatova and
               Phillip W. Lord and
               Susanna{-}Assunta Sansone and
               Susie Stephens and
               Nigam H. Shah},
  title     = {Selected papers from the 12\({}^{\mbox{th}}\) annual Bio-Ontologies
               meeting},
  journal   = {J. Biomed. Semant.},
  volume    = {1},
  number    = {{S-1}},
  pages     = {I1},
  year      = {2010},
  url       = {http://www.jbiomedsem.com/content/1/S1/I1},
  timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl    = {https://dblp.org/rec/journals/biomedsem/SoldatovaLSSS10.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org}
}
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