{"id":"https://openalex.org/W2788254992","doi":"https://doi.org/10.1093/bib/bby087","title":"Harmonizing semantic annotations for computational models in biology","display_name":"Harmonizing semantic annotations for computational models in biology","publication_year":2018,"publication_date":"2018-11-06","ids":{"openalex":"https://openalex.org/W2788254992","doi":"https://doi.org/10.1093/bib/bby087","mag":"2788254992","pmid":"https://pubmed.ncbi.nlm.nih.gov/30462164"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bby087","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bby087","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"review","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://doi.org/10.1093/bib/bby087","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5031987031","display_name":"Maxwell L. Neal","orcid":"https://orcid.org/0000-0002-2390-6572"},"institutions":[{"id":"https://openalex.org/I58610484","display_name":"Seattle University","ror":"https://ror.org/02jqc0m91","country_code":"US","type":"education","lineage":["https://openalex.org/I58610484"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Maxwell Lewis Neal","raw_affiliation_strings":["Seattle Children\u2019s Research Institute, Center for Global Infectious Disease Research, Seattle, USA"],"raw_orcid":"https://orcid.org/0000-0002-2390-6572","affiliations":[{"raw_affiliation_string":"Seattle Children\u2019s Research Institute, Center for Global Infectious Disease Research, Seattle, USA","institution_ids":["https://openalex.org/I58610484"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5012727458","display_name":"Matthias K\u00f6nig","orcid":"https://orcid.org/0000-0003-1725-179X"},"institutions":[{"id":"https://openalex.org/I39343248","display_name":"Humboldt-Universit\u00e4t zu Berlin","ror":"https://ror.org/01hcx6992","country_code":"DE","type":"education","lineage":["https://openalex.org/I39343248"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Matthias K\u00f6nig","raw_affiliation_strings":["Department of Biology, Humboldt-University Berlin, Institute for Theoretical Biology, Berlin, Germany"],"raw_orcid":"https://orcid.org/0000-0003-1725-179X","affiliations":[{"raw_affiliation_string":"Department of Biology, Humboldt-University Berlin, Institute for Theoretical Biology, Berlin, Germany","institution_ids":["https://openalex.org/I39343248"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086460310","display_name":"David Nickerson","orcid":"https://orcid.org/0000-0003-4667-9779"},"institutions":[{"id":"https://openalex.org/I154130895","display_name":"University of Auckland","ror":"https://ror.org/03b94tp07","country_code":"NZ","type":"education","lineage":["https://openalex.org/I154130895"]}],"countries":["NZ"],"is_corresponding":false,"raw_author_name":"David Nickerson","raw_affiliation_strings":["Auckland Bioengineering Institute, University of Auckland, Auckland, NZ"],"raw_orcid":"https://orcid.org/0000-0003-4667-9779","affiliations":[{"raw_affiliation_string":"Auckland Bioengineering Institute, University of Auckland, Auckland, NZ","institution_ids":["https://openalex.org/I154130895"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5028639846","display_name":"G\u00f6ksel M\u0131s\u0131rl\u0131","orcid":"https://orcid.org/0000-0002-2454-7188"},"institutions":[{"id":"https://openalex.org/I56007636","display_name":"Keele University","ror":"https://ror.org/00340yn33","country_code":"GB","type":"education","lineage":["https://openalex.org/I56007636"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"G\u00f6ksel M\u0131s\u0131rl\u0131","raw_affiliation_strings":["School of Computing and Mathematics, Keele University, Keele, UK"],"raw_orcid":"https://orcid.org/0000-0002-2454-7188","affiliations":[{"raw_affiliation_string":"School of Computing and Mathematics, Keele University, Keele, UK","institution_ids":["https://openalex.org/I56007636"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008688050","display_name":"Reza Kalbasi","orcid":"https://orcid.org/0000-0002-9871-6853"},"institutions":[{"id":"https://openalex.org/I154130895","display_name":"University of Auckland","ror":"https://ror.org/03b94tp07","country_code":"NZ","type":"education","lineage":["https://openalex.org/I154130895"]}],"countries":["NZ"],"is_corresponding":false,"raw_author_name":"Reza Kalbasi","raw_affiliation_strings":["Auckland Bioengineering Institute, University of Auckland, Auckland, NZ"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Auckland Bioengineering Institute, University of Auckland, Auckland, NZ","institution_ids":["https://openalex.org/I154130895"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065854572","display_name":"Andreas Dr\u00e4ger","orcid":"https://orcid.org/0000-0002-1240-5553"},"institutions":[{"id":"https://openalex.org/I4210133934","display_name":"Bernstein Center for Computational Neuroscience T\u00fcbingen","ror":"https://ror.org/03kfnwp54","country_code":"DE","type":"government","lineage":["https://openalex.org/I4210092532","https://openalex.org/I4210133934"]},{"id":"https://openalex.org/I8087733","display_name":"University of T\u00fcbingen","ror":"https://ror.org/03a1kwz48","country_code":"DE","type":"education","lineage":["https://openalex.org/I8087733"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Andreas Dr\u00e4ger","raw_affiliation_strings":["Computational Systems Biology of Infection and Antimicrobial-Resistant Pathogens, Center for Bioinformatics T\u00fcbingen (ZBIT), University of T\u00fcbingen, T\u00fcbingen, Germany","Department of Computer Science, University of T\u00fcbingen, T\u00fcbingen, Germany"],"raw_orcid":"https://orcid.org/0000-0002-1240-5553","affiliations":[{"raw_affiliation_string":"Computational Systems Biology of Infection and Antimicrobial-Resistant Pathogens, Center for Bioinformatics T\u00fcbingen (ZBIT), University of T\u00fcbingen, T\u00fcbingen, Germany","institution_ids":["https://openalex.org/I4210133934","https://openalex.org/I8087733"]},{"raw_affiliation_string":"Department of Computer Science, University of T\u00fcbingen, T\u00fcbingen, Germany","institution_ids":["https://openalex.org/I8087733"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5067113540","display_name":"Koray Atala\u011f","orcid":"https://orcid.org/0000-0003-0517-4803"},"institutions":[{"id":"https://openalex.org/I154130895","display_name":"University of Auckland","ror":"https://ror.org/03b94tp07","country_code":"NZ","type":"education","lineage":["https://openalex.org/I154130895"]}],"countries":["NZ"],"is_corresponding":false,"raw_author_name":"Koray Atalag","raw_affiliation_strings":["Auckland Bioengineering Institute, University of Auckland, Auckland, NZ"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Auckland Bioengineering Institute, University of Auckland, Auckland, NZ","institution_ids":["https://openalex.org/I154130895"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041054741","display_name":"Vijayalakshmi Chelliah","orcid":"https://orcid.org/0000-0002-2618-283X"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Vijayalakshmi Chelliah","raw_affiliation_strings":["European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, UK","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090837240","display_name":"Michael T. Cooling","orcid":"https://orcid.org/0000-0002-3417-0177"},"institutions":[{"id":"https://openalex.org/I154130895","display_name":"University of Auckland","ror":"https://ror.org/03b94tp07","country_code":"NZ","type":"education","lineage":["https://openalex.org/I154130895"]}],"countries":["NZ"],"is_corresponding":false,"raw_author_name":"Michael T Cooling","raw_affiliation_strings":["Auckland Bioengineering Institute, University of Auckland, Auckland, NZ"],"raw_orcid":"https://orcid.org/0000-0002-3417-0177","affiliations":[{"raw_affiliation_string":"Auckland Bioengineering Institute, University of Auckland, Auckland, NZ","institution_ids":["https://openalex.org/I154130895"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103723179","display_name":"Daniel L. Cook","orcid":null},"institutions":[{"id":"https://openalex.org/I201448701","display_name":"University of Washington","ror":"https://ror.org/00cvxb145","country_code":"US","type":"education","lineage":["https://openalex.org/I201448701"]},{"id":"https://openalex.org/I2801852214","display_name":"University of Washington Medical Center","ror":"https://ror.org/00wbzw723","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I2801852214"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Daniel L Cook","raw_affiliation_strings":["Department of Biomedical Informatics and Medical Education, University of Washington, Seattle, WA, USA","Department of Physiology and Biophysics, University of Washington, Seattle, WA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biomedical Informatics and Medical Education, University of Washington, Seattle, WA, USA","institution_ids":["https://openalex.org/I2801852214"]},{"raw_affiliation_string":"Department of Physiology and Biophysics, University of Washington, Seattle, WA, USA","institution_ids":["https://openalex.org/I201448701"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073347260","display_name":"Sharon Crook","orcid":"https://orcid.org/0000-0003-1659-0749"},"institutions":[{"id":"https://openalex.org/I55732556","display_name":"Arizona State University","ror":"https://ror.org/03efmqc40","country_code":"US","type":"education","lineage":["https://openalex.org/I55732556"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sharon Crook","raw_affiliation_strings":["School of Mathematical and Statistical Sciences, Arizona State University, Tempe, USA"],"raw_orcid":"https://orcid.org/0000-0003-1659-0749","affiliations":[{"raw_affiliation_string":"School of Mathematical and Statistical Sciences, Arizona State University, Tempe, USA","institution_ids":["https://openalex.org/I55732556"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023569612","display_name":"Miguel de Alba","orcid":null},"institutions":[{"id":"https://openalex.org/I2801133538","display_name":"Federal Institute for Risk Assessment","ror":"https://ror.org/03k3ky186","country_code":"DE","type":"government","lineage":["https://openalex.org/I2801133538","https://openalex.org/I2801963157"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Miguel de Alba","raw_affiliation_strings":["German Federal Institute for Risk Assessment, Berlin, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"German Federal Institute for Risk Assessment, Berlin, Germany","institution_ids":["https://openalex.org/I2801133538"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5019288997","display_name":"Samuel H. Friedman","orcid":"https://orcid.org/0000-0001-8003-6860"},"institutions":[{"id":"https://openalex.org/I4210087673","display_name":"Opto-Knowledge Systems (United States)","ror":"https://ror.org/002hd9629","country_code":"US","type":"company","lineage":["https://openalex.org/I4210087673"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Samuel H Friedman","raw_affiliation_strings":["Opto-Knowledge Systems, Inc. (OKSI), Torrance, CA, USA"],"raw_orcid":"https://orcid.org/0000-0001-8003-6860","affiliations":[{"raw_affiliation_string":"Opto-Knowledge Systems, Inc. (OKSI), Torrance, CA, USA","institution_ids":["https://openalex.org/I4210087673"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073607042","display_name":"Alan Garny","orcid":"https://orcid.org/0000-0001-7606-5888"},"institutions":[{"id":"https://openalex.org/I154130895","display_name":"University of Auckland","ror":"https://ror.org/03b94tp07","country_code":"NZ","type":"education","lineage":["https://openalex.org/I154130895"]}],"countries":["NZ"],"is_corresponding":false,"raw_author_name":"Alan Garny","raw_affiliation_strings":["Auckland Bioengineering Institute, University of Auckland, Auckland, NZ"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Auckland Bioengineering Institute, University of Auckland, Auckland, NZ","institution_ids":["https://openalex.org/I154130895"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010618664","display_name":"John H. Gennari","orcid":"https://orcid.org/0000-0001-8254-4957"},"institutions":[{"id":"https://openalex.org/I2801852214","display_name":"University of Washington Medical Center","ror":"https://ror.org/00wbzw723","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I2801852214"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"John H Gennari","raw_affiliation_strings":["Department of Biomedical Informatics and Medical Education, University of Washington, Seattle, WA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biomedical Informatics and Medical Education, University of Washington, Seattle, WA, USA","institution_ids":["https://openalex.org/I2801852214"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009493678","display_name":"Padraig Gleeson","orcid":"https://orcid.org/0000-0001-5963-8576"},"institutions":[{"id":"https://openalex.org/I45129253","display_name":"University College London","ror":"https://ror.org/02jx3x895","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I45129253"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Padraig Gleeson","raw_affiliation_strings":["Department of Neuroscience, Physiology and Pharmacology, University College London, London, UK"],"raw_orcid":"https://orcid.org/0000-0001-5963-8576","affiliations":[{"raw_affiliation_string":"Department of Neuroscience, Physiology and Pharmacology, University College London, London, UK","institution_ids":["https://openalex.org/I45129253"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5028677591","display_name":"Martin Golebiewski","orcid":"https://orcid.org/0000-0002-8683-7084"},"institutions":[{"id":"https://openalex.org/I71030271","display_name":"Heidelberg Institute for Theoretical Studies","ror":"https://ror.org/01f7bcy98","country_code":"DE","type":"facility","lineage":["https://openalex.org/I71030271"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Martin Golebiewski","raw_affiliation_strings":["Heidelberg Institute for Theoretical Studies (HITS gGmbH), Heidelberg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Heidelberg Institute for Theoretical Studies (HITS gGmbH), Heidelberg, Germany","institution_ids":["https://openalex.org/I71030271"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016716446","display_name":"Michael Hucka","orcid":"https://orcid.org/0000-0001-9105-5960"},"institutions":[{"id":"https://openalex.org/I122411786","display_name":"California Institute of Technology","ror":"https://ror.org/05dxps055","country_code":"US","type":"education","lineage":["https://openalex.org/I122411786"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Michael Hucka","raw_affiliation_strings":["Department of Computing and Mathematical Sciences, California Institute of Technology, Pasadena, CA, USA"],"raw_orcid":"https://orcid.org/0000-0001-9105-5960","affiliations":[{"raw_affiliation_string":"Department of Computing and Mathematical Sciences, California Institute of Technology, Pasadena, CA, USA","institution_ids":["https://openalex.org/I122411786"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057780150","display_name":"Nick Juty","orcid":"https://orcid.org/0000-0002-2036-8350"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Nick Juty","raw_affiliation_strings":["European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, UK","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111386695","display_name":"Chris J. Myers","orcid":null},"institutions":[{"id":"https://openalex.org/I223532165","display_name":"University of Utah","ror":"https://ror.org/03r0ha626","country_code":"US","type":"education","lineage":["https://openalex.org/I223532165"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Chris Myers","raw_affiliation_strings":["Department of Electrical and Computer Engineering, University of Utah, Salt Lake City, UT, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Electrical and Computer Engineering, University of Utah, Salt Lake City, UT, USA","institution_ids":["https://openalex.org/I223532165"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5050779826","display_name":"Brett G. Olivier","orcid":"https://orcid.org/0000-0002-5293-5321"},"institutions":[{"id":"https://openalex.org/I223822909","display_name":"Heidelberg University","ror":"https://ror.org/038t36y30","country_code":"DE","type":"education","lineage":["https://openalex.org/I223822909"]},{"id":"https://openalex.org/I865915315","display_name":"Vrije Universiteit Amsterdam","ror":"https://ror.org/008xxew50","country_code":"NL","type":"education","lineage":["https://openalex.org/I865915315"]}],"countries":["DE","NL"],"is_corresponding":false,"raw_author_name":"Brett G Olivier","raw_affiliation_strings":["Modelling of Biological Processes, BioQUANT/COS, Heidelberg University, Germany","Systems Bioinformatics, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands"],"raw_orcid":"https://orcid.org/0000-0002-5293-5321","affiliations":[{"raw_affiliation_string":"Modelling of Biological Processes, BioQUANT/COS, Heidelberg University, Germany","institution_ids":["https://openalex.org/I223822909"]},{"raw_affiliation_string":"Systems Bioinformatics, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands","institution_ids":["https://openalex.org/I865915315"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044484291","display_name":"Herbert M. Sauro","orcid":"https://orcid.org/0000-0002-3659-6817"},"institutions":[{"id":"https://openalex.org/I201448701","display_name":"University of Washington","ror":"https://ror.org/00cvxb145","country_code":"US","type":"education","lineage":["https://openalex.org/I201448701"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Herbert M Sauro","raw_affiliation_strings":["Department of Bioengineering, University of Washington, Seattle, WA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Bioengineering, University of Washington, Seattle, WA, USA","institution_ids":["https://openalex.org/I201448701"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046119695","display_name":"Martin Scharm","orcid":"https://orcid.org/0000-0003-4519-7030"},"institutions":[{"id":"https://openalex.org/I4665924","display_name":"University of Rostock","ror":"https://ror.org/03zdwsf69","country_code":"DE","type":"education","lineage":["https://openalex.org/I4665924"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Martin Scharm","raw_affiliation_strings":["Department of Systems Biology and Bioinformatics, University of Rostock, Rostock, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Systems Biology and Bioinformatics, University of Rostock, Rostock, Germany","institution_ids":["https://openalex.org/I4665924"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5020530809","display_name":"Jacky L. Snoep","orcid":"https://orcid.org/0000-0002-0405-8854"},"institutions":[{"id":"https://openalex.org/I26092322","display_name":"Stellenbosch University","ror":"https://ror.org/05bk57929","country_code":"ZA","type":"education","lineage":["https://openalex.org/I26092322"]},{"id":"https://openalex.org/I28407311","display_name":"University of Manchester","ror":"https://ror.org/027m9bs27","country_code":"GB","type":"education","lineage":["https://openalex.org/I28407311"]},{"id":"https://openalex.org/I865915315","display_name":"Vrije Universiteit Amsterdam","ror":"https://ror.org/008xxew50","country_code":"NL","type":"education","lineage":["https://openalex.org/I865915315"]}],"countries":["GB","NL","ZA"],"is_corresponding":false,"raw_author_name":"Jacky L Snoep","raw_affiliation_strings":["Department of Biochemistry, Stellenbosch University, Matieland, South Africa","Department of Molecular Cell Physiology, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands","Manchester Institute for Biotechnology, University of Manchester, Manchester, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biochemistry, Stellenbosch University, Matieland, South Africa","institution_ids":["https://openalex.org/I26092322"]},{"raw_affiliation_string":"Department of Molecular Cell Physiology, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands","institution_ids":["https://openalex.org/I865915315"]},{"raw_affiliation_string":"Manchester Institute for Biotechnology, University of Manchester, Manchester, UK","institution_ids":["https://openalex.org/I28407311"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5019876939","display_name":"Vasundra Tour\u00e9","orcid":"https://orcid.org/0000-0003-4639-4431"},"institutions":[{"id":"https://openalex.org/I204778367","display_name":"Norwegian University of Science and Technology","ror":"https://ror.org/05xg72x27","country_code":"NO","type":"education","lineage":["https://openalex.org/I204778367"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"Vasundra Tour\u00e9","raw_affiliation_strings":["Department of Biology, Norwegian University of Science and Technology, Trondheim, Norway"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, Norwegian University of Science and Technology, Trondheim, Norway","institution_ids":["https://openalex.org/I204778367"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089978830","display_name":"Anil Wipat","orcid":"https://orcid.org/0000-0001-7310-4191"},"institutions":[{"id":"https://openalex.org/I84884186","display_name":"Newcastle University","ror":"https://ror.org/01kj2bm70","country_code":"GB","type":"education","lineage":["https://openalex.org/I84884186"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Anil Wipat","raw_affiliation_strings":["School of Computing Science, Newcastle University, Newcastle upon Tyne, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computing Science, Newcastle University, Newcastle upon Tyne, UK","institution_ids":["https://openalex.org/I84884186"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022724143","display_name":"Olaf Wolkenhauer","orcid":"https://orcid.org/0000-0001-6105-2937"},"institutions":[{"id":"https://openalex.org/I26092322","display_name":"Stellenbosch University","ror":"https://ror.org/05bk57929","country_code":"ZA","type":"education","lineage":["https://openalex.org/I26092322"]},{"id":"https://openalex.org/I4665924","display_name":"University of Rostock","ror":"https://ror.org/03zdwsf69","country_code":"DE","type":"education","lineage":["https://openalex.org/I4665924"]}],"countries":["DE","ZA"],"is_corresponding":false,"raw_author_name":"Olaf Wolkenhauer","raw_affiliation_strings":["Department of Systems Biology and Bioinformatics, University of Rostock, Rostock, Germany","Stellenbosch Institute for Advanced Study (STIAS), Stellenbosch, South Africa"],"raw_orcid":"https://orcid.org/0000-0001-6105-2937","affiliations":[{"raw_affiliation_string":"Department of Systems Biology and Bioinformatics, University of Rostock, Rostock, Germany","institution_ids":["https://openalex.org/I4665924"]},{"raw_affiliation_string":"Stellenbosch Institute for Advanced Study (STIAS), Stellenbosch, South Africa","institution_ids":["https://openalex.org/I26092322"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5103188993","display_name":"Dagmar Waltemath","orcid":"https://orcid.org/0000-0002-5886-5563"},"institutions":[{"id":"https://openalex.org/I4665924","display_name":"University of Rostock","ror":"https://ror.org/03zdwsf69","country_code":"DE","type":"education","lineage":["https://openalex.org/I4665924"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Dagmar Waltemath","raw_affiliation_strings":["Department of Systems Biology and Bioinformatics, University of Rostock, Rostock, Germany"],"raw_orcid":"https://orcid.org/0000-0002-5886-5563","affiliations":[{"raw_affiliation_string":"Department of Systems Biology and Bioinformatics, University of Rostock, Rostock, Germany","institution_ids":["https://openalex.org/I4665924"]}]}],"institutions":[],"countries_distinct_count":7,"institutions_distinct_count":28,"corresponding_author_ids":["https://openalex.org/A5031987031"],"corresponding_institution_ids":["https://openalex.org/I58610484"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":22.4126,"has_fulltext":true,"cited_by_count":84,"citation_normalized_percentile":{"value":0.99261781,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":98,"max":100},"biblio":{"volume":"20","issue":"2","first_page":"540","last_page":"550"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9993000030517578,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},"topics":[{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9993000030517578,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9965000152587891,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9940000176429749,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8255090713500977},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.8183158040046692},{"id":"https://openalex.org/keywords/interoperability","display_name":"Interoperability","score":0.706305205821991},{"id":"https://openalex.org/keywords/reusability","display_name":"Reusability","score":0.5647481679916382},{"id":"https://openalex.org/keywords/semantic-annotation","display_name":"Semantic annotation","score":0.5638578534126282},{"id":"https://openalex.org/keywords/protocol","display_name":"Protocol (science)","score":0.5630096197128296},{"id":"https://openalex.org/keywords/resource","display_name":"Resource (disambiguation)","score":0.5354022979736328},{"id":"https://openalex.org/keywords/computational-model","display_name":"Computational model","score":0.5220691561698914},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.516444206237793},{"id":"https://openalex.org/keywords/variety","display_name":"Variety (cybernetics)","score":0.5082216262817383},{"id":"https://openalex.org/keywords/semantic-interoperability","display_name":"Semantic interoperability","score":0.4572882056236267},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.361524760723114},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.31575101613998413},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.26553773880004883},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.17850208282470703}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8255090713500977},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.8183158040046692},{"id":"https://openalex.org/C20136886","wikidata":"https://www.wikidata.org/wiki/Q749647","display_name":"Interoperability","level":2,"score":0.706305205821991},{"id":"https://openalex.org/C137981799","wikidata":"https://www.wikidata.org/wiki/Q1369184","display_name":"Reusability","level":3,"score":0.5647481679916382},{"id":"https://openalex.org/C2985727698","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Semantic annotation","level":3,"score":0.5638578534126282},{"id":"https://openalex.org/C2780385302","wikidata":"https://www.wikidata.org/wiki/Q367158","display_name":"Protocol (science)","level":3,"score":0.5630096197128296},{"id":"https://openalex.org/C206345919","wikidata":"https://www.wikidata.org/wiki/Q20380951","display_name":"Resource (disambiguation)","level":2,"score":0.5354022979736328},{"id":"https://openalex.org/C66024118","wikidata":"https://www.wikidata.org/wiki/Q1122506","display_name":"Computational model","level":2,"score":0.5220691561698914},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.516444206237793},{"id":"https://openalex.org/C136197465","wikidata":"https://www.wikidata.org/wiki/Q1729295","display_name":"Variety (cybernetics)","level":2,"score":0.5082216262817383},{"id":"https://openalex.org/C192800085","wikidata":"https://www.wikidata.org/wiki/Q5258530","display_name":"Semantic interoperability","level":3,"score":0.4572882056236267},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.361524760723114},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.31575101613998413},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.26553773880004883},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.17850208282470703},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.0},{"id":"https://openalex.org/C204787440","wikidata":"https://www.wikidata.org/wiki/Q188504","display_name":"Alternative medicine","level":2,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.0},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D001690","descriptor_name":"Biological Science Disciplines","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001690","descriptor_name":"Biological Science Disciplines","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001690","descriptor_name":"Biological Science Disciplines","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001690","descriptor_name":"Biological Science Disciplines","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001690","descriptor_name":"Biological Science Disciplines","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001690","descriptor_name":"Biological Science Disciplines","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001690","descriptor_name":"Biological Science Disciplines","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":13,"locations":[{"id":"doi:10.1093/bib/bby087","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bby087","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:30462164","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30462164","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:pure.atira.dk:openaire/3275dcb7-b049-4660-8af1-2624180c5df9","is_oa":true,"landing_page_url":"https://research.manchester.ac.uk/en/publications/3275dcb7-b049-4660-8af1-2624180c5df9","pdf_url":null,"source":{"id":"https://openalex.org/S4306400662","display_name":"Research Explorer (The University of Manchester)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I28407311","host_organization_name":"University of Manchester","host_organization_lineage":["https://openalex.org/I28407311"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Neal, M L, K\u00f6nig, M, Nickerson, D, Misirli, G, Kalbasi, R, Dr\u00e4ger, A, Atalag, K, Chelliah, V, Cooling, M T, Cook, D L, Crook, S, De Alba, M, Friedman, S H, Garny, A, Gennari, J H, Gleeson, P, Golebiewski, M, Hucka, M, Juty, N, Myers, C, Olivier, B G, Sauro, H M, Scharm, M, Snoep, J L, Tour\u00e9, V, Wipat, A, Wolkenhauer, O & Waltemath, D 2019, 'Harmonizing semantic annotations for computational models in biology', Briefings in Bioinformatics, vol. 20, no. 2, pp. 540-550. https://doi.org/10.1093/bib/bby087","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:research.vu.nl:openaire/bbb763a1-7903-4100-81e2-20f84559c081","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6433895","pdf_url":null,"source":{"id":"https://openalex.org/S4306401107","display_name":"VU Research Portal","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I865915315","host_organization_name":"Vrije Universiteit Amsterdam","host_organization_lineage":["https://openalex.org/I865915315"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Neal, M L, K\u00f6nig, M, Nickerson, D, Misirli, G, Kalbasi, R, Dr\u00e4ger, A, Atalag, K, Chelliah, V, Cooling, M T, Cook, D L, Crook, S, De Alba, M, Friedman, S H, Garny, A, Gennari, J H, Gleeson, P, Golebiewski, M, Hucka, M, Juty, N, Myers, C, Olivier, B G, Sauro, H M, Scharm, M, Snoep, J L, Tour\u00e9, V, Wipat, A, Wolkenhauer, O & Waltemath, D 2019, 'Harmonizing semantic annotations for computational models in biology', Briefings in bioinformatics, vol. 20, no. 2, pp. 540-550. https://doi.org/10.1093/bib/bby087","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:eprints.ucl.ac.uk.OAI2:10072375","is_oa":true,"landing_page_url":"https://discovery.ucl.ac.uk/id/eprint/10072375/","pdf_url":"https://discovery.ucl.ac.uk/id/eprint/10072375/1/bby087%282%29.pdf","source":{"id":"https://openalex.org/S4306400024","display_name":"UCL Discovery (University College London)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I45129253","host_organization_name":"University College London","host_organization_lineage":["https://openalex.org/I45129253"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"   Briefings in Bioinformatics , 20  (2)   pp. 540-550.   (2019)      ","raw_type":"Article"},{"id":"pmh:oai:scholar.sun.ac.za:10019.1/110824","is_oa":true,"landing_page_url":"http://hdl.handle.net/10019.1/110824","pdf_url":"http://hdl.handle.net/10019.1/110824","source":{"id":"https://openalex.org/S4306400300","display_name":"SUNScholar (Stellenbosch University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I26092322","host_organization_name":"Stellenbosch University","host_organization_lineage":["https://openalex.org/I26092322"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article"},{"id":"pmh:oai:authors.library.caltech.edu:90537","is_oa":true,"landing_page_url":"https://authors.library.caltech.edu/90537/","pdf_url":null,"source":{"id":"https://openalex.org/S4306402161","display_name":"CaltechAUTHORS (California Institute of Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I122411786","host_organization_name":"California Institute of Technology","host_organization_lineage":["https://openalex.org/I122411786"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article"},{"id":"pmh:oai:eprint.ncl.ac.uk:256631","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4306402485","display_name":"Newcastle University ePrints (Newcastle Univesity)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I84884186","host_organization_name":"Newcastle University","host_organization_lineage":["https://openalex.org/I84884186"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":""},{"id":"pmh:oai:eprints.keele.ac.uk:5519","is_oa":true,"landing_page_url":"https://eprints.keele.ac.uk/5519/1/bby087.pdf","pdf_url":null,"source":{"id":"https://openalex.org/S4306402149","display_name":"Keele Research Repository (Keele University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I56007636","host_organization_name":"Keele University","host_organization_lineage":["https://openalex.org/I56007636"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article"},{"id":"pmh:oai:eprints.keele.ac.uk:8788","is_oa":true,"landing_page_url":"https://eprints.keele.ac.uk/8788/1/Harmonizing%20Semantic%20Annotations.pdf","pdf_url":null,"source":{"id":"https://openalex.org/S4306402149","display_name":"Keele Research Repository (Keele University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I56007636","host_organization_name":"Keele University","host_organization_lineage":["https://openalex.org/I56007636"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article"},{"id":"pmh:oai:pure.atira.dk:publications/3275dcb7-b049-4660-8af1-2624180c5df9","is_oa":true,"landing_page_url":"http://www.scopus.com/inward/record.url?scp=85063713612&partnerID=8YFLogxK","pdf_url":null,"source":{"id":"https://openalex.org/S4306400662","display_name":"Research Explorer (The University of Manchester)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I28407311","host_organization_name":"University of Manchester","host_organization_lineage":["https://openalex.org/I28407311"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Neal, M L, K\u00f6nig, M, Nickerson, D, Misirli, G, Kalbasi, R, Dr\u00e4ger, A, Atalag, K, Chelliah, V, Cooling, M T, Cook, D L, Crook, S, De Alba, M, Friedman, S H, Garny, A, Gennari, J H, Gleeson, P, Golebiewski, M, Hucka, M, Juty, N, Myers, C, Olivier, B G, Sauro, H M, Scharm, M, Snoep, J L, Tour\u00e9, V, Wipat, A, Wolkenhauer, O & Waltemath, D 2019, 'Harmonizing semantic annotations for computational models in biology', Briefings in Bioinformatics, vol. 20, no. 2, pp. 540-550. https://doi.org/10.1093/bib/bby087","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:research.vu.nl:publications/bbb763a1-7903-4100-81e2-20f84559c081","is_oa":true,"landing_page_url":"http://www.scopus.com/inward/citedby.url?scp=85063713612&partnerID=8YFLogxK","pdf_url":null,"source":{"id":"https://openalex.org/S4306401107","display_name":"VU Research Portal","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I865915315","host_organization_name":"Vrije Universiteit Amsterdam","host_organization_lineage":["https://openalex.org/I865915315"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Neal, M L, K\u00f6nig, M, Nickerson, D, Misirli, G, Kalbasi, R, Dr\u00e4ger, A, Atalag, K, Chelliah, V, Cooling, M T, Cook, D L, Crook, S, De Alba, M, Friedman, S H, Garny, A, Gennari, J H, Gleeson, P, Golebiewski, M, Hucka, M, Juty, N, Myers, C, Olivier, B G, Sauro, H M, Scharm, M, Snoep, J L, Tour\u00e9, V, Wipat, A, Wolkenhauer, O & Waltemath, D 2019, 'Harmonizing semantic annotations for computational models in biology', Briefings in bioinformatics, vol. 20, no. 2, pp. 540-550. https://doi.org/10.1093/bib/bby087","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:vu:oai:research.vu.nl:publications/bbb763a1-7903-4100-81e2-20f84559c081","is_oa":true,"landing_page_url":"https://research.vu.nl/en/publications/bbb763a1-7903-4100-81e2-20f84559c081","pdf_url":null,"source":{"id":"https://openalex.org/S4306401843","display_name":"Data Archiving and Networked Services (DANS)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1322597698","host_organization_name":"Royal Netherlands Academy of Arts and Sciences","host_organization_lineage":["https://openalex.org/I1322597698"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Briefings in bioinformatics, 20(2), 540 - 550. Oxford University Press","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1093/bib/bby087","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bby087","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/12","score":0.4699999988079071,"display_name":"Responsible consumption and production"}],"awards":[{"id":"https://openalex.org/G1026718254","display_name":null,"funder_award_id":"101445","funder_id":"https://openalex.org/F4320307874","funder_display_name":"Wellcome"},{"id":"https://openalex.org/G1225261942","display_name":null,"funder_award_id":"EB021711","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G2163976285","display_name":null,"funder_award_id":"BBG0102181","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G2165998032","display_name":null,"funder_award_id":"731001","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G2522204555","display_name":null,"funder_award_id":"LM011969","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G353144647","display_name":null,"funder_award_id":"031 6194","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"},{"id":"https://openalex.org/G3767306467","display_name":null,"funder_award_id":"DBI-1356041","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G3771654662","display_name":null,"funder_award_id":"GM070923","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4432005201","display_name":null,"funder_award_id":"CCF-1218095","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G5049198836","display_name":null,"funder_award_id":"BB/G010218/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G5057084118","display_name":null,"funder_award_id":"GM123032","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5119588929","display_name":null,"funder_award_id":"CCF-1748200","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G5188653157","display_name":null,"funder_award_id":"F08.005.001","funder_id":"https://openalex.org/F4320328178","funder_display_name":"BE-Basic Foundation"},{"id":"https://openalex.org/G5318661203","display_name":null,"funder_award_id":"BB/M013189/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G5343157487","display_name":null,"funder_award_id":"82813","funder_id":"https://openalex.org/F4320320671","funder_display_name":"National Research Foundation"},{"id":"https://openalex.org/G5441339972","display_name":null,"funder_award_id":"NRF-SARCHI-82813","funder_id":"https://openalex.org/F4320320671","funder_display_name":"National Research Foundation"},{"id":"https://openalex.org/G5446152200","display_name":"DMMCore: Data and Model Management Core for ERASysAPP &amp; Europe","funder_award_id":"BB/M013189/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G5918933644","display_name":"SysMO-DB2","funder_award_id":"BB/I004637/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G6495370963","display_name":null,"funder_award_id":"GM109824","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6732895847","display_name":null,"funder_award_id":"EB023912","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7392916660","display_name":"EAGER: A Standard Enabled Workflow for Synthetic Biology","funder_award_id":"1748200","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G744749362","display_name":null,"funder_award_id":"BB/I004637/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G7506483631","display_name":null,"funder_award_id":"MH106674","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8352764473","display_name":null,"funder_award_id":"031L0054","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"},{"id":"https://openalex.org/G8776450047","display_name":"AF: SHF: BCSP: Small: Genetic Design Automation","funder_award_id":"1218095","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G884521232","display_name":"Collaborative: ABI Development: Synthetic Biology Open Language Resource","funder_award_id":"1356041","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320307874","display_name":"Wellcome","ror":"https://ror.org/029chgv08"},{"id":"https://openalex.org/F4320311040","display_name":"Norges Teknisk-Naturvitenskapelige Universitet","ror":"https://ror.org/05xg72x27"},{"id":"https://openalex.org/F4320316702","display_name":"MedTech CoRE","ror":"https://ror.org/02p521049"},{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320320671","display_name":"National Research Foundation","ror":"https://ror.org/05s0g1g46"},{"id":"https://openalex.org/F4320321114","display_name":"Bundesministerium f\u00fcr Bildung und Forschung","ror":"https://ror.org/04pz7b180"},{"id":"https://openalex.org/F4320323803","display_name":"Bundesministerium f\u00fcr Wirtschaft und Energie","ror":"https://ror.org/02vgg2808"},{"id":"https://openalex.org/F4320324316","display_name":"Klaus Tschira Stiftung","ror":"https://ror.org/052jep661"},{"id":"https://openalex.org/F4320328178","display_name":"BE-Basic Foundation","ror":null},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320332167","display_name":"Directorate for Biological Sciences","ror":"https://ror.org/001xhss06"},{"id":"https://openalex.org/F4320334629","display_name":"Biotechnology and Biological Sciences Research Council","ror":"https://ror.org/00cwqg982"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":108,"referenced_works":["https://openalex.org/W1555643513","https://openalex.org/W1966387099","https://openalex.org/W1966722314","https://openalex.org/W1969709265","https://openalex.org/W1971290995","https://openalex.org/W1974896839","https://openalex.org/W1984374486","https://openalex.org/W1989263028","https://openalex.org/W1991339919","https://openalex.org/W2000963751","https://openalex.org/W2013093146","https://openalex.org/W2016462601","https://openalex.org/W2020561965","https://openalex.org/W2024741923","https://openalex.org/W2027082381","https://openalex.org/W2033377040","https://openalex.org/W2038828643","https://openalex.org/W2052522161","https://openalex.org/W2060184615","https://openalex.org/W2063587866","https://openalex.org/W2069157810","https://openalex.org/W2075760625","https://openalex.org/W2084168100","https://openalex.org/W2084377579","https://openalex.org/W2096951208","https://openalex.org/W2098769288","https://openalex.org/W2098896780","https://openalex.org/W2102653059","https://openalex.org/W2102916587","https://openalex.org/W2103017472","https://openalex.org/W2103260426","https://openalex.org/W2112178600","https://openalex.org/W2112390719","https://openalex.org/W2112563944","https://openalex.org/W2113218387","https://openalex.org/W2114211768","https://openalex.org/W2116034137","https://openalex.org/W2116373735","https://openalex.org/W2123604001","https://openalex.org/W2123783513","https://openalex.org/W2124419982","https://openalex.org/W2127563440","https://openalex.org/W2127950479","https://openalex.org/W2128501050","https://openalex.org/W2128763542","https://openalex.org/W2131294353","https://openalex.org/W2134221731","https://openalex.org/W2139493897","https://openalex.org/W2139511723","https://openalex.org/W2145435867","https://openalex.org/W2146737319","https://openalex.org/W2148329459","https://openalex.org/W2150586932","https://openalex.org/W2150908245","https://openalex.org/W2154268795","https://openalex.org/W2157904870","https://openalex.org/W2159739447","https://openalex.org/W2160751597","https://openalex.org/W2163670493","https://openalex.org/W2165418074","https://openalex.org/W2170122529","https://openalex.org/W2171926758","https://openalex.org/W2175715045","https://openalex.org/W2179501783","https://openalex.org/W2181889137","https://openalex.org/W2202347610","https://openalex.org/W2211443823","https://openalex.org/W2219048344","https://openalex.org/W2241238536","https://openalex.org/W2276489244","https://openalex.org/W2301866769","https://openalex.org/W2302501749","https://openalex.org/W2339662749","https://openalex.org/W2345275877","https://openalex.org/W2404737222","https://openalex.org/W2413797628","https://openalex.org/W2530047883","https://openalex.org/W2557399158","https://openalex.org/W2558342853","https://openalex.org/W2559588208","https://openalex.org/W2560036845","https://openalex.org/W2566589469","https://openalex.org/W2580869787","https://openalex.org/W2591955558","https://openalex.org/W2739999456","https://openalex.org/W2764023277","https://openalex.org/W2765869690","https://openalex.org/W2767616304","https://openalex.org/W2773787581","https://openalex.org/W2783507655","https://openalex.org/W2886471998","https://openalex.org/W2916475656","https://openalex.org/W2952465807","https://openalex.org/W2952944698","https://openalex.org/W3103908354","https://openalex.org/W4230563465","https://openalex.org/W4231917197","https://openalex.org/W4239696231","https://openalex.org/W4250127996","https://openalex.org/W4256366179","https://openalex.org/W6633801932","https://openalex.org/W6684855472","https://openalex.org/W6728365446","https://openalex.org/W6734455192","https://openalex.org/W6744980539","https://openalex.org/W6745963768","https://openalex.org/W6747612257","https://openalex.org/W6813711271"],"related_works":["https://openalex.org/W2369337446","https://openalex.org/W2126412646","https://openalex.org/W4385569300","https://openalex.org/W2574165153","https://openalex.org/W2043793756","https://openalex.org/W2251095918","https://openalex.org/W2206855020","https://openalex.org/W2105339902","https://openalex.org/W4298822596","https://openalex.org/W2900565345"],"abstract_inverted_index":{"Life":[0],"science":[1],"researchers":[2,72],"use":[3],"computational":[4,59],"models":[5,31,65],"to":[6,51,108,145,193],"articulate":[7],"and":[8,27,45,66,74,80,87,126,135,182],"test":[9],"hypotheses":[10],"about":[11],"the":[12,25,36,39,58,93,100,139,159,168,175],"behavior":[13],"of":[14,29,38,63,96,102,123,141,170,186],"biological":[15,61,161],"systems.":[16],"Semantic":[17],"annotation":[18,98,104,111,124,156,172],"is":[19],"a":[20,109,121,128,184,190],"critical":[21],"component":[22],"for":[23,35,42,120,154,188],"enhancing":[24],"interoperability":[26],"reusability":[28],"such":[30,114],"as":[32,34,48],"well":[33],"integration":[37,83],"data":[40,67,89],"needed":[41],"model":[43,78,85,103,143],"parameterization":[44],"validation.":[46],"Encoded":[47],"machine-readable":[49],"links":[50],"knowledge":[52,82,147],"resource":[53,148],"terms,":[54],"semantic":[55,97,155,194],"annotations":[56,70],"describe":[57],"or":[60],"meaning":[62],"what":[64],"represent.":[68],"These":[69],"help":[71],"find":[73],"repurpose":[75],"models,":[76],"accelerate":[77],"composition":[79],"enable":[81],"across":[84],"repositories":[86],"experimental":[88],"stores.":[90],"However,":[91],"realizing":[92],"potential":[94],"benefits":[95],"requires":[99],"development":[101],"standards":[105],"that":[106,130],"adhere":[107],"community-based":[110],"protocol.":[112],"Without":[113],"standards,":[115],"tool":[116],"developers":[117],"must":[118],"account":[119],"variety":[122],"formats":[125],"approaches,":[127],"situation":[129],"can":[131,137],"become":[132],"prohibitively":[133],"cumbersome":[134],"which":[136],"defeat":[138],"purpose":[140],"linking":[142],"elements":[144],"controlled":[146],"terms.":[149],"Currently,":[150],"no":[151],"consensus":[152,191],"protocol":[153],"exists":[157],"among":[158,174],"larger":[160],"modeling":[162],"community.":[163],"Here,":[164],"we":[165],"report":[166],"on":[167],"landscape":[169],"current":[171],"practices":[173],"COmputational":[176],"Modeling":[177],"in":[178],"BIology":[179],"NEtwork":[180],"community":[181],"provide":[183],"set":[185],"recommendations":[187],"building":[189],"approach":[192],"annotation.":[195]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":6},{"year":2024,"cited_by_count":14},{"year":2023,"cited_by_count":14},{"year":2022,"cited_by_count":7},{"year":2021,"cited_by_count":17},{"year":2020,"cited_by_count":12},{"year":2019,"cited_by_count":7},{"year":2018,"cited_by_count":5}],"updated_date":"2026-04-25T08:17:42.794288","created_date":"2025-10-10T00:00:00"}
