{"id":"https://openalex.org/W2096951208","doi":"https://doi.org/10.1186/s12859-014-0369-z","title":"COMBINE archive and OMEX format: one file to share all information to reproduce a modeling project","display_name":"COMBINE archive and OMEX format: one file to share all information to reproduce a modeling project","publication_year":2014,"publication_date":"2014-12-01","ids":{"openalex":"https://openalex.org/W2096951208","doi":"https://doi.org/10.1186/s12859-014-0369-z","mag":"2096951208","pmid":"https://pubmed.ncbi.nlm.nih.gov/25494900"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-014-0369-z","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-014-0369-z","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-014-0369-z","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["arxiv","crossref","datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-014-0369-z","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5076617999","display_name":"Frank Bergmann","orcid":"https://orcid.org/0000-0001-5553-4702"},"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/I85384741","display_name":"Heidelberg University","ror":"https://ror.org/04rcqnp59","country_code":"US","type":"education","lineage":["https://openalex.org/I85384741"]}],"countries":["DE","US"],"is_corresponding":false,"raw_author_name":"Frank T Bergmann","raw_affiliation_strings":["Modelling of Biological Processes, BioQUANT/COS, University of Heidelberg, INF 267, Heidelberg, 69120, Germany. fbergman@caltech.edu"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Modelling of Biological Processes, BioQUANT/COS, University of Heidelberg, INF 267, Heidelberg, 69120, Germany. fbergman@caltech.edu","institution_ids":["https://openalex.org/I223822909","https://openalex.org/I85384741"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087335185","display_name":"Richard R. Adams","orcid":"https://orcid.org/0000-0003-1501-0941"},"institutions":[{"id":"https://openalex.org/I2801653624","display_name":"Fountain Way","ror":"https://ror.org/01xqpsp32","country_code":"GB","type":"healthcare","lineage":["https://openalex.org/I160648776","https://openalex.org/I2801653624"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Richard Adams","raw_affiliation_strings":["ResearchSpace, 24 Fountainhall Road, Edinburgh, EH9 2LW, UK. ra22597@gmail.com"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"ResearchSpace, 24 Fountainhall Road, Edinburgh, EH9 2LW, UK. ra22597@gmail.com","institution_ids":["https://openalex.org/I2801653624"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053863175","display_name":"Stuart Moodie","orcid":"https://orcid.org/0000-0001-6191-5595"},"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"]},{"id":"https://openalex.org/I4210135313","display_name":"Eight19 (United Kingdom)","ror":"https://ror.org/03n0ge846","country_code":"GB","type":"company","lineage":["https://openalex.org/I4210135313"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Stuart Moodie","raw_affiliation_strings":["Current affiliation: Eight Pillars Ltd, 19 Redford Walk, Edinburgh, EH13 0AG, UK. stuart.moodie@eightpillars.uk.com","European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK. stuart.moodie@eightpillars.uk.com"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Current affiliation: Eight Pillars Ltd, 19 Redford Walk, Edinburgh, EH13 0AG, UK. stuart.moodie@eightpillars.uk.com","institution_ids":["https://openalex.org/I4210135313"]},{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK. stuart.moodie@eightpillars.uk.com","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027917052","display_name":"Jonathan Cooper","orcid":"https://orcid.org/0000-0001-6009-3542"},"institutions":[{"id":"https://openalex.org/I40120149","display_name":"University of Oxford","ror":"https://ror.org/052gg0110","country_code":"GB","type":"education","lineage":["https://openalex.org/I40120149"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Jonathan Cooper","raw_affiliation_strings":["Department of Computer Science, University of Oxford, Wolfson Building, Parks Road, Oxford, OX1 3QD, UK. jonathan.cooper@cs.ox.ac.uk"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Oxford, Wolfson Building, Parks Road, Oxford, OX1 3QD, UK. jonathan.cooper@cs.ox.ac.uk","institution_ids":["https://openalex.org/I40120149"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5084954396","display_name":"Mihai Glont","orcid":"https://orcid.org/0000-0002-8211-7581"},"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":"Mihai Glont","raw_affiliation_strings":["European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK. mglont@ebi.ac.uk"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK. mglont@ebi.ac.uk","institution_ids":["https://openalex.org/I1303153112"]}]},{"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":["HITS gGmbH, Schloss-Wolfsbrunnenweg 35, D-69118, Heidelberg, Germany. martin.golebiewski@h-its.org"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"HITS gGmbH, Schloss-Wolfsbrunnenweg 35, D-69118, Heidelberg, Germany. martin.golebiewski@h-its.org","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":["Computing and Mathematical sciences, California Institute of Technology, Pasadena, CA, 91125, USA. mhucka@caltech.edu"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computing and Mathematical sciences, California Institute of Technology, Pasadena, CA, 91125, USA. mhucka@caltech.edu","institution_ids":["https://openalex.org/I122411786"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062892160","display_name":"Camille Laibe","orcid":"https://orcid.org/0000-0002-4625-743X"},"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":"Camille Laibe","raw_affiliation_strings":["European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK. laibe@ebi.ac.uk"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK. laibe@ebi.ac.uk","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103621803","display_name":"Andrew K. Miller","orcid":null},"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"]},{"id":"https://openalex.org/I39854758","display_name":"Auckland University of Technology","ror":"https://ror.org/01zvqw119","country_code":"NZ","type":"education","lineage":["https://openalex.org/I39854758"]}],"countries":["NZ"],"is_corresponding":false,"raw_author_name":"Andrew K Miller","raw_affiliation_strings":["Auckland Bioengineering Institute, University of Auckland, Private Bag 92019, Auckland Mail Centre, Auckland, 1142, New Zealand. ak.miller@auckland.ac.nz"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Auckland Bioengineering Institute, University of Auckland, Private Bag 92019, Auckland Mail Centre, Auckland, 1142, New Zealand. ak.miller@auckland.ac.nz","institution_ids":["https://openalex.org/I154130895","https://openalex.org/I39854758"]}]},{"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"]},{"id":"https://openalex.org/I39854758","display_name":"Auckland University of Technology","ror":"https://ror.org/01zvqw119","country_code":"NZ","type":"education","lineage":["https://openalex.org/I39854758"]}],"countries":["NZ"],"is_corresponding":false,"raw_author_name":"David P Nickerson","raw_affiliation_strings":["Auckland Bioengineering Institute, University of Auckland, Private Bag 92019, Auckland Mail Centre, Auckland, 1142, New Zealand. david.nickerson@gmail.com"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Auckland Bioengineering Institute, University of Auckland, Private Bag 92019, Auckland Mail Centre, Auckland, 1142, New Zealand. david.nickerson@gmail.com","institution_ids":["https://openalex.org/I154130895","https://openalex.org/I39854758"]}]},{"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/I865915315","display_name":"Vrije Universiteit Amsterdam","ror":"https://ror.org/008xxew50","country_code":"NL","type":"education","lineage":["https://openalex.org/I865915315"]},{"id":"https://openalex.org/I911458345","display_name":"Amsterdam UMC Location Vrije Universiteit Amsterdam","ror":"https://ror.org/00q6h8f30","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I4210151833","https://openalex.org/I911458345"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Brett G Olivier","raw_affiliation_strings":["Systems Bioinformatics, VU University Amsterdam, Amsterdam, 1081 HV, The Netherlands. b.g.olivier@vu.nl"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Systems Bioinformatics, VU University Amsterdam, Amsterdam, 1081 HV, The Netherlands. b.g.olivier@vu.nl","institution_ids":["https://openalex.org/I865915315","https://openalex.org/I911458345"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002460040","display_name":"Nicol\u00e1s Rodr\u00edguez","orcid":"https://orcid.org/0000-0002-9290-7894"},"institutions":[{"id":"https://openalex.org/I1302113299","display_name":"Babraham Institute","ror":"https://ror.org/01d5qpn59","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1302113299","https://openalex.org/I2799693246","https://openalex.org/I4210087105"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Nicolas Rodriguez","raw_affiliation_strings":["Babraham Institute, Babraham Research Campus, Cambridge, CB22 3AT, UK. nicolas.rodriguez@babraham.ac.uk"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Babraham Institute, Babraham Research Campus, Cambridge, CB22 3AT, UK. nicolas.rodriguez@babraham.ac.uk","institution_ids":["https://openalex.org/I1302113299"]}]},{"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, 98195, WA, USA. hsauro@u.washington.edu"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Bioengineering, University of Washington, Seattle, 98195, WA, USA. hsauro@u.washington.edu","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":["Systems Biology and Bioinformatics, University of Rostock, Ulmenstrasse 69, Rostock, 18057, Germany. martin.scharm@uni-rostock.de"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Systems Biology and Bioinformatics, University of Rostock, Ulmenstrasse 69, Rostock, 18057, Germany. martin.scharm@uni-rostock.de","institution_ids":["https://openalex.org/I4665924"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029941394","display_name":"Stian Soiland\u2010Reyes","orcid":null},"institutions":[{"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"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Stian Soiland-Reyes","raw_affiliation_strings":["School of Computer Science, The University of Manchester, Oxford Road, Manchester, M13 9PL, UK. soiland-reyes@cs.manchester.ac.uk"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science, The University of Manchester, Oxford Road, Manchester, M13 9PL, UK. soiland-reyes@cs.manchester.ac.uk","institution_ids":["https://openalex.org/I28407311"]}]},{"author_position":"middle","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":["Systems Biology and Bioinformatics, University of Rostock, Ulmenstrasse 69, Rostock, 18057, Germany. dagmar.waltemath@uni-rostock.de"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Systems Biology and Bioinformatics, University of Rostock, Ulmenstrasse 69, Rostock, 18057, Germany. dagmar.waltemath@uni-rostock.de","institution_ids":["https://openalex.org/I4665924"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5079697004","display_name":"Florent Yvon","orcid":"https://orcid.org/0000-0002-6025-3590"},"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":"Florent Yvon","raw_affiliation_strings":["European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK. florent@ebi.ac.uk"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK. florent@ebi.ac.uk","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5112438594","display_name":"Nicolas Le Nov\u00e8re","orcid":null},"institutions":[{"id":"https://openalex.org/I1302113299","display_name":"Babraham Institute","ror":"https://ror.org/01d5qpn59","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1302113299","https://openalex.org/I2799693246","https://openalex.org/I4210087105"]},{"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":true,"raw_author_name":"Nicolas Le Nov\u00e8re","raw_affiliation_strings":["Babraham Institute, Babraham Research Campus, Cambridge, CB22 3AT, UK. lenov@babraham.ac.uk","European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK. lenov@babraham.ac.uk"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Babraham Institute, Babraham Research Campus, Cambridge, CB22 3AT, UK. lenov@babraham.ac.uk","institution_ids":["https://openalex.org/I1302113299"]},{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK. lenov@babraham.ac.uk","institution_ids":["https://openalex.org/I1303153112"]}]}],"institutions":[],"countries_distinct_count":5,"institutions_distinct_count":16,"corresponding_author_ids":["https://openalex.org/A5112438594"],"corresponding_institution_ids":["https://openalex.org/I1302113299","https://openalex.org/I1303153112"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":3.7696,"has_fulltext":true,"cited_by_count":186,"citation_normalized_percentile":{"value":0.94334695,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"15","issue":"1","first_page":"369","last_page":"369"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.5552999973297119,"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"}},"topics":[{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.5552999973297119,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.1120000034570694,"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/T11986","display_name":"Scientific Computing and Data Management","score":0.03629999980330467,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/file-format","display_name":"File format","score":0.6664626598358154},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6293704509735107},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.4865235686302185},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.45200014114379883},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.4376829266548157},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.37500235438346863},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.2931487262248993},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.20264530181884766},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.08575746417045593}],"concepts":[{"id":"https://openalex.org/C97250363","wikidata":"https://www.wikidata.org/wiki/Q235557","display_name":"File format","level":2,"score":0.6664626598358154},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6293704509735107},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.4865235686302185},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.45200014114379883},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.4376829266548157},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.37500235438346863},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.2931487262248993},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.20264530181884766},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.08575746417045593},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D001109","descriptor_name":"Archives","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001109","descriptor_name":"Archives","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001109","descriptor_name":"Archives","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001109","descriptor_name":"Archives","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"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":"D012984","descriptor_name":"Software","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":true},{"descriptor_ui":"D012984","descriptor_name":"Software","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":true},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"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":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":12,"locations":[{"id":"doi:10.1186/s12859-014-0369-z","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-014-0369-z","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-014-0369-z","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:25494900","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25494900","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:4272562","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4272562","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:pure.atira.dk:openaire/895f3281-7473-4687-9f6e-a22d887e7c9c","is_oa":true,"landing_page_url":"https://research.manchester.ac.uk/en/publications/895f3281-7473-4687-9f6e-a22d887e7c9c","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":"Bergmann, F T, Adams, R, Moodie, S, Cooper, J, Glont, M, Golebiewski, M, Hucka, M, Laibe, C, Miller, A K, Nickerson, D P, Olivier, B G, Rodriguez, N, Sauro, H M, Scharm, M, Soiland-Reyes, S, Waltemath, D, Yvon, F & Le Nov\u00e8re, N 2014, 'COMBINE archive and OMEX format : one file to share all information to reproduce a modeling project', BMC Bioinformatics, vol. 15, pp. 369. https://doi.org/10.1186/s12859-014-0369-z","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:research.vu.nl:openaire/fefbbf40-6d68-4a8f-9abc-4091cbb03f82","is_oa":true,"landing_page_url":"https://research.vu.nl/en/publications/fefbbf40-6d68-4a8f-9abc-4091cbb03f82","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":"Bergmann, F T, Adams, R, Moodie, S, Cooper, J, Glont, M, Golebiewski, M, Hucka, M, Laibe, C, Miller, A K, Nickerson, D P, Olivier, B G, Rodriguez, N, Sauro, H M, Scharm, M, Soiland-Reyes, S, Waltemath, D, Yvon, F & Le Novere, N 2014, 'COMBINE archive and OMEX format : One file to share all information to reproduce a modeling project', BMC Bioinformatics, vol. 15, 326, pp. 1-9. https://doi.org/10.1186/s12859-014-0369-z","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:arXiv.org:1407.4992","is_oa":true,"landing_page_url":"http://arxiv.org/abs/1407.4992","pdf_url":"https://arxiv.org/pdf/1407.4992","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":"2331-8422","issn":["2331-8422"],"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"text"},{"id":"pmh:oai:authors.library.caltech.edu:54463","is_oa":true,"landing_page_url":"https://resolver.caltech.edu/CaltechAUTHORS:20150205-152803537","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:eprints.ucl.ac.uk.OAI2:1530413","is_oa":false,"landing_page_url":"http://discovery.ucl.ac.uk/1530413/","pdf_url":null,"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":"BMC BIOINFORMATICS , 15 (ARTN 369) (2014)","raw_type":"Article"},{"id":"pmh:oai:ora.ox.ac.uk:uuid:4dd567ae-1caf-4a89-bbda-32a8d3d03b57","is_oa":true,"landing_page_url":"https://ora.ox.ac.uk/objects/uuid:4dd567ae-1caf-4a89-bbda-32a8d3d03b57","pdf_url":null,"source":{"id":"https://openalex.org/S4306402636","display_name":"Oxford University Research Archive (ORA) (University of Oxford)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I40120149","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/I40120149"],"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":"Symplectic Elements at Oxford","raw_type":"Journal article"},{"id":"pmh:oai:research.vu.nl:publications/fefbbf40-6d68-4a8f-9abc-4091cbb03f82","is_oa":true,"landing_page_url":"https://hdl.handle.net/1871.1/fefbbf40-6d68-4a8f-9abc-4091cbb03f82","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":"Bergmann, F T, Adams, R, Moodie, S, Cooper, J, Glont, M, Golebiewski, M, Hucka, M, Laibe, C, Miller, A K, Nickerson, D P, Olivier, B G, Rodriguez, N, Sauro, H M, Scharm, M, Soiland-Reyes, S, Waltemath, D, Yvon, F & Le Novere, N 2014, 'COMBINE archive and OMEX format : One file to share all information to reproduce a modeling project', BMC Bioinformatics, vol. 15, 326, pp. 1-9. https://doi.org/10.1186/s12859-014-0369-z","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:vu:oai:research.vu.nl:publications/a6020e41-4953-494a-95fc-dd35f09ff6e9","is_oa":true,"landing_page_url":"https://research.vu.nl/en/publications/a6020e41-4953-494a-95fc-dd35f09ff6e9","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":"BMC Bioinformatics, 15(1)","raw_type":"info:eu-repo/semantics/article"},{"id":"doi:10.25504/fairsharing.27tnee","is_oa":true,"landing_page_url":"https://doi.org/10.25504/fairsharing.27tnee","pdf_url":null,"source":{"id":"https://openalex.org/S7407053452","display_name":"FAIRsharing.org","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"Dataset"}],"best_oa_location":{"id":"doi:10.1186/s12859-014-0369-z","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-014-0369-z","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-014-0369-z","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G128135968","display_name":null,"funder_award_id":"P50-GM094503","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G1326582021","display_name":null,"funder_award_id":"EP/I017909","funder_id":"https://openalex.org/F4320334627","funder_display_name":"Engineering and Physical Sciences Research Council"},{"id":"https://openalex.org/G1564535905","display_name":null,"funder_award_id":"FKZ 031","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"},{"id":"https://openalex.org/G2424234262","display_name":null,"funder_award_id":"115156","funder_id":"https://openalex.org/F4320326631","funder_display_name":"Innovative Medicines Initiative"},{"id":"https://openalex.org/G3024511915","display_name":"A new approach to Science at the Life Sciences Interface","funder_award_id":"EP/I017909/1","funder_id":"https://openalex.org/F4320334627","funder_display_name":"Engineering and Physical Sciences Research Council"},{"id":"https://openalex.org/G3148254941","display_name":null,"funder_award_id":"GM070923","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G3230537243","display_name":null,"funder_award_id":"R01GM081070","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"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/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/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/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/G5513879771","display_name":null,"funder_award_id":"P50-GM094503","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G5753548785","display_name":null,"funder_award_id":"BBS/E/B/000C0419","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G6329410964","display_name":null,"funder_award_id":"40-41009-98-10038","funder_id":"https://openalex.org/F4320321007","funder_display_name":"ZonMw"},{"id":"https://openalex.org/G6428962470","display_name":null,"funder_award_id":"EP/I017909/1","funder_id":"https://openalex.org/F4320334627","funder_display_name":"Engineering and Physical Sciences Research Council"},{"id":"https://openalex.org/G6705591880","display_name":"A systems approach to understanding lipid, Ca2+ and MAPK signalling networks","funder_award_id":"BBS/E/B/000C0419","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G6781161026","display_name":null,"funder_award_id":"NIH P50","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7175982441","display_name":null,"funder_award_id":"GM094503","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7811978243","display_name":null,"funder_award_id":"P50 GM094503","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G798009823","display_name":null,"funder_award_id":"R01 GM081070","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G8547353928","display_name":null,"funder_award_id":"FKZ 031 6194","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"}],"funders":[{"id":"https://openalex.org/F4320308943","display_name":"Microsoft Research","ror":"https://ror.org/00d0nc645"},{"id":"https://openalex.org/F4320321007","display_name":"ZonMw","ror":"https://ror.org/01yaj9a77"},{"id":"https://openalex.org/F4320321114","display_name":"Bundesministerium f\u00fcr Bildung und Forschung","ror":"https://ror.org/04pz7b180"},{"id":"https://openalex.org/F4320326631","display_name":"Innovative Medicines Initiative","ror":"https://ror.org/019af4n30"},{"id":"https://openalex.org/F4320330087","display_name":"Maurice Wilkins Centre for Molecular Biodiscovery","ror":"https://ror.org/0327mmx61"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320334627","display_name":"Engineering and Physical Sciences Research Council","ror":"https://ror.org/0439y7842"},{"id":"https://openalex.org/F4320334629","display_name":"Biotechnology and Biological Sciences Research Council","ror":"https://ror.org/00cwqg982"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"},{"id":"https://openalex.org/F4320338370","display_name":"FP7 Information and Communication Technologies","ror":null}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2096951208.pdf","grobid_xml":"https://content.openalex.org/works/W2096951208.grobid-xml"},"referenced_works_count":44,"referenced_works":["https://openalex.org/W1500540107","https://openalex.org/W1924650773","https://openalex.org/W1971060829","https://openalex.org/W2014890444","https://openalex.org/W2020561965","https://openalex.org/W2020644002","https://openalex.org/W2021380963","https://openalex.org/W2026692131","https://openalex.org/W2035257048","https://openalex.org/W2036318837","https://openalex.org/W2040890820","https://openalex.org/W2046166587","https://openalex.org/W2053798630","https://openalex.org/W2060184615","https://openalex.org/W2066129063","https://openalex.org/W2069157810","https://openalex.org/W2081781433","https://openalex.org/W2089562567","https://openalex.org/W2096435507","https://openalex.org/W2096951208","https://openalex.org/W2107572678","https://openalex.org/W2113777491","https://openalex.org/W2114124738","https://openalex.org/W2123783513","https://openalex.org/W2128763542","https://openalex.org/W2131645519","https://openalex.org/W2132218677","https://openalex.org/W2134185611","https://openalex.org/W2145267275","https://openalex.org/W2145408484","https://openalex.org/W2145435867","https://openalex.org/W2150908245","https://openalex.org/W2153251212","https://openalex.org/W2168605009","https://openalex.org/W2170032647","https://openalex.org/W2187364252","https://openalex.org/W2277281823","https://openalex.org/W2279421136","https://openalex.org/W2285079835","https://openalex.org/W2297674424","https://openalex.org/W2441893520","https://openalex.org/W2889443530","https://openalex.org/W4241685680","https://openalex.org/W4254697110"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2415545834","https://openalex.org/W2069695727","https://openalex.org/W2150084125","https://openalex.org/W2118505788","https://openalex.org/W1802639773","https://openalex.org/W1972196578","https://openalex.org/W1490878237","https://openalex.org/W1542823905","https://openalex.org/W2990314835"],"abstract_inverted_index":{"BACKGROUND:":[0],"With":[1],"the":[2,10,12,19,72,80,87,96,99,107,111,135,138,147,153,156,188,207,219,227,246,257],"ever":[3],"increasing":[4],"use":[5,81],"of":[6,21,82,98,109,137,160,165,209,269],"computational":[7],"models":[8,16,268],"in":[9,52,90,120,168,199,214,222,236],"biosciences,":[11],"need":[13],"to":[14,43,62,260],"share":[15],"and":[17,25,117,149,152,211,230,240,273],"reproduce":[18,63],"results":[20],"published":[22,66],"studies":[23],"efficiently":[24],"easily":[26],"is":[27,95,125],"becoming":[28],"more":[29,262],"important.":[30],"To":[31],"this":[32],"end,":[33],"various":[34,58],"standards":[35,170],"have":[36],"been":[37],"proposed":[38],"that":[39,105,129,186,245],"can":[40],"be":[41],"used":[42],"describe":[44,71],"models,":[45],"simulations,":[46],"data":[47],"or":[48,197],"other":[49,83],"essential":[50],"information":[51,112,145,221,228],"a":[53,64,102,115,126,131,161,251],"consistent":[54],"fashion.":[55],"These":[56],"constitute":[57],"separate":[59],"components":[60],"required":[61],"given":[65],"scientific":[67],"result.":[68],"RESULTS:":[69],"We":[70,243],"Open":[73],"Modeling":[74,89],"EXchange":[75],"format":[76],"(OMEX).":[77],"Together":[78],"with":[79],"standard":[84],"formats":[85],"from":[86],"Computational":[88],"Biology":[91],"Network":[92],"(COMBINE),":[93],"OMEX":[94,123],"basis":[97],"COMBINE":[100,162,169,189,204,247],"Archive,":[101],"single":[103],"file":[104,124,143],"supports":[106],"exchange":[108],"all":[110,218,226],"necessary":[113],"for":[114,254],"modeling":[116,200,210],"simulation":[118,212],"experiment":[119],"biology.":[121],"An":[122],"ZIP":[127],"container":[128],"includes":[130],"manifest":[132],"file,":[133],"listing":[134],"content":[136,159],"archive,":[139],"an":[140,180],"optional":[141],"metadata":[142],"adding":[144],"about":[146],"archive":[148],"its":[150],"content,":[151],"files":[154,166,177],"describing":[155],"model.":[157],"The":[158,203],"Archive":[163,190,205,248],"consists":[164],"encoded":[167],"whenever":[171],"possible,":[172],"but":[173],"may":[174],"include":[175],"additional":[176],"defined":[178],"by":[179,216],"Internet":[181],"Media":[182],"Type.":[183],"Several":[184],"tools":[185],"support":[187],"are":[191],"available,":[192],"either":[193],"as":[194,256,266],"independent":[195],"libraries":[196],"embedded":[198],"software.":[201],"CONCLUSIONS:":[202],"facilitates":[206],"reproduction":[208],"experiments":[213,264],"biology":[215],"embedding":[217],"relevant":[220],"one":[223],"file.":[224],"Having":[225],"stored":[229],"exchanged":[231],"at":[232],"once":[233],"also":[234],"helps":[235],"building":[237],"activity":[238],"logs":[239],"audit":[241],"trails.":[242],"anticipate":[244],"will":[249],"become":[250],"significant":[252],"help":[253],"modellers,":[255],"domain":[258],"moves":[259],"larger,":[261],"complex":[263],"such":[265],"multi-scale":[267],"organs,":[270],"digital":[271],"organisms,":[272],"bioengineering.":[274]},"counts_by_year":[{"year":2026,"cited_by_count":6},{"year":2025,"cited_by_count":9},{"year":2024,"cited_by_count":21},{"year":2023,"cited_by_count":27},{"year":2022,"cited_by_count":19},{"year":2021,"cited_by_count":28},{"year":2020,"cited_by_count":19},{"year":2019,"cited_by_count":11},{"year":2018,"cited_by_count":16},{"year":2017,"cited_by_count":8},{"year":2016,"cited_by_count":12},{"year":2015,"cited_by_count":7},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":1}],"updated_date":"2026-07-28T07:46:37.118299","created_date":"2016-06-24T00:00:00"}
