{"id":"https://openalex.org/W2187364252","doi":"https://doi.org/10.1515/jib-2017-0086","title":"Simulation Experiment Description Markup Language (SED-ML) Level 1 Version 3 (L1V3)","display_name":"Simulation Experiment Description Markup Language (SED-ML) Level 1 Version 3 (L1V3)","publication_year":2018,"publication_date":"2018-03-19","ids":{"openalex":"https://openalex.org/W2187364252","doi":"https://doi.org/10.1515/jib-2017-0086","mag":"2187364252","pmid":"https://pubmed.ncbi.nlm.nih.gov/26528560"},"language":"en","primary_location":{"id":"doi:10.1515/jib-2017-0086","is_oa":true,"landing_page_url":"https://doi.org/10.1515/jib-2017-0086","pdf_url":"http://www.degruyter.com/downloadpdf/j/jib.2018.15.issue-1/jib-2017-0086/jib-2017-0086.xml","source":{"id":"https://openalex.org/S4393917359","display_name":"Berichte aus der medizinischen Informatik und Bioinformatik/Journal of integrative bioinformatics","issn_l":"1432-4385","issn":["1432-4385","1613-4516"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Integrative Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"diamond","oa_url":"http://www.degruyter.com/downloadpdf/j/jib.2018.15.issue-1/jib-2017-0086/jib-2017-0086.xml","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/I122411786","display_name":"California Institute of Technology","ror":"https://ror.org/05dxps055","country_code":"US","type":"education","lineage":["https://openalex.org/I122411786"]}],"countries":["DE","US"],"is_corresponding":false,"raw_author_name":"Frank T. Bergmann","raw_affiliation_strings":["Department of Computing and Mathematical Sciences, California Institute of Technology, Pasadena, CA, USA","Modelling of Biol. Processes, BioQUANT/COS, Heidelberg University, Heidelberg, Germany"],"affiliations":[{"raw_affiliation_string":"Department of Computing and Mathematical Sciences, California Institute of Technology, Pasadena, CA, USA","institution_ids":["https://openalex.org/I122411786"]},{"raw_affiliation_string":"Modelling of Biol. Processes, BioQUANT/COS, Heidelberg University, Heidelberg, Germany","institution_ids":["https://openalex.org/I223822909"]}]},{"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, Oxford, UK"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Oxford, Oxford, UK","institution_ids":["https://openalex.org/I40120149"]}]},{"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":true,"raw_author_name":"Matthias K\u00f6nig","raw_affiliation_strings":["Department of Biology, Humboldt University, Berlin, Germany"],"affiliations":[{"raw_affiliation_string":"Department of Biology, Humboldt University, Berlin, Germany","institution_ids":["https://openalex.org/I39343248"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5108075963","display_name":"Ion Moraru","orcid":null},"institutions":[{"id":"https://openalex.org/I140172145","display_name":"University of Connecticut","ror":"https://ror.org/02der9h97","country_code":"US","type":"education","lineage":["https://openalex.org/I140172145"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ion Moraru","raw_affiliation_strings":["Department of Cell Biology, University of Connecticut, Connecticut, USA"],"affiliations":[{"raw_affiliation_string":"Department of Cell Biology, University of Connecticut, Connecticut, USA","institution_ids":["https://openalex.org/I140172145"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086460310","display_name":"David Nickerson","orcid":"https://orcid.org/0000-0003-4667-9779"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"David Nickerson","raw_affiliation_strings":["Auckland Bioengineering Institute, Auckland, New Zealand"],"affiliations":[{"raw_affiliation_string":"Auckland Bioengineering Institute, Auckland, New Zealand","institution_ids":[]}]},{"author_position":"middle","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"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Nicolas Le Nov\u00e8re","raw_affiliation_strings":["Babraham Institute Cambridge, Cambridgeshire, UK"],"affiliations":[{"raw_affiliation_string":"Babraham Institute Cambridge, Cambridgeshire, UK","institution_ids":["https://openalex.org/I1302113299"]}]},{"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/I122411786","display_name":"California Institute of Technology","ror":"https://ror.org/05dxps055","country_code":"US","type":"education","lineage":["https://openalex.org/I122411786"]},{"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","US"],"is_corresponding":false,"raw_author_name":"Brett G. Olivier","raw_affiliation_strings":["Department of Computing and Mathematical Sciences, California Institute of Technology, Pasadena, CA, USA","Modelling of Biol. Processes, BioQUANT/COS, Heidelberg University, Heidelberg, Germany","Systems Bioinformatics, AIMMS, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands"],"affiliations":[{"raw_affiliation_string":"Department of Computing and Mathematical Sciences, California Institute of Technology, Pasadena, CA, USA","institution_ids":["https://openalex.org/I122411786"]},{"raw_affiliation_string":"Modelling of Biol. Processes, BioQUANT/COS, Heidelberg University, Heidelberg, Germany","institution_ids":["https://openalex.org/I223822909"]},{"raw_affiliation_string":"Systems Bioinformatics, AIMMS, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands","institution_ids":["https://openalex.org/I865915315"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111964760","display_name":"Sven Sahle","orcid":null},"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"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Sven Sahle","raw_affiliation_strings":["Modelling of Biol. Processes, BioQUANT/COS, Heidelberg University, Heidelberg, Germany"],"affiliations":[{"raw_affiliation_string":"Modelling of Biol. Processes, BioQUANT/COS, Heidelberg University, Heidelberg, Germany","institution_ids":["https://openalex.org/I223822909"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5067339679","display_name":"Lucian P. Smith","orcid":"https://orcid.org/0000-0001-7002-6386"},"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":"Lucian Smith","raw_affiliation_strings":["University of Washington, Seattle, WA, USA"],"affiliations":[{"raw_affiliation_string":"University of Washington, Seattle, WA, USA","institution_ids":["https://openalex.org/I201448701"]}]},{"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":["University of Rostock, Rostock, Germany"],"affiliations":[{"raw_affiliation_string":"University of Rostock, Rostock, Germany","institution_ids":["https://openalex.org/I4665924"]}]}],"institutions":[],"countries_distinct_count":4,"institutions_distinct_count":10,"corresponding_author_ids":["https://openalex.org/A5012727458"],"corresponding_institution_ids":["https://openalex.org/I39343248"],"apc_list":null,"apc_paid":null,"fwci":1.9545,"has_fulltext":false,"cited_by_count":40,"citation_normalized_percentile":{"value":0.86493019,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"15","issue":"1","first_page":"262","last_page":"262"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9994000196456909,"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":0.9994000196456909,"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":0.9936000108718872,"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/T11195","display_name":"Simulation Techniques and Applications","score":0.9905999898910522,"subfield":{"id":"https://openalex.org/subfields/1803","display_name":"Management Science and Operations Research"},"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/sbml","display_name":"SBML","score":0.9354938268661499},{"id":"https://openalex.org/keywords/markup-language","display_name":"Markup language","score":0.8928624391555786},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.793041467666626},{"id":"https://openalex.org/keywords/xml","display_name":"XML","score":0.6471754312515259},{"id":"https://openalex.org/keywords/sed","display_name":"sed","score":0.5836189389228821},{"id":"https://openalex.org/keywords/representation","display_name":"Representation (politics)","score":0.5230951309204102},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.49464723467826843},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.48702579736709595},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.45476892590522766},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.13075032830238342}],"concepts":[{"id":"https://openalex.org/C87186988","wikidata":"https://www.wikidata.org/wiki/Q452197","display_name":"SBML","level":4,"score":0.9354938268661499},{"id":"https://openalex.org/C45874996","wikidata":"https://www.wikidata.org/wiki/Q37045","display_name":"Markup language","level":3,"score":0.8928624391555786},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.793041467666626},{"id":"https://openalex.org/C8797682","wikidata":"https://www.wikidata.org/wiki/Q2115","display_name":"XML","level":2,"score":0.6471754312515259},{"id":"https://openalex.org/C126707884","wikidata":"https://www.wikidata.org/wiki/Q305876","display_name":"sed","level":2,"score":0.5836189389228821},{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.5230951309204102},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.49464723467826843},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.48702579736709595},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.45476892590522766},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.13075032830238342},{"id":"https://openalex.org/C94625758","wikidata":"https://www.wikidata.org/wiki/Q7163","display_name":"Politics","level":2,"score":0.0},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D004282","descriptor_name":"Documentation","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D004282","descriptor_name":"Documentation","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D004282","descriptor_name":"Documentation","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D004282","descriptor_name":"Documentation","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D017408","descriptor_name":"Guidelines as Topic","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D017408","descriptor_name":"Guidelines as Topic","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D038622","descriptor_name":"Internationality","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D038622","descriptor_name":"Internationality","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D038622","descriptor_name":"Internationality","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D038622","descriptor_name":"Internationality","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D064229","descriptor_name":"Biological Ontologies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064229","descriptor_name":"Biological Ontologies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064229","descriptor_name":"Biological Ontologies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064229","descriptor_name":"Biological Ontologies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D066264","descriptor_name":"Datasets as Topic","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D066264","descriptor_name":"Datasets as Topic","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D066264","descriptor_name":"Datasets as Topic","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D066264","descriptor_name":"Datasets as Topic","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false}],"locations_count":10,"locations":[{"id":"doi:10.1515/jib-2017-0086","is_oa":true,"landing_page_url":"https://doi.org/10.1515/jib-2017-0086","pdf_url":"http://www.degruyter.com/downloadpdf/j/jib.2018.15.issue-1/jib-2017-0086/jib-2017-0086.xml","source":{"id":"https://openalex.org/S4393917359","display_name":"Berichte aus der medizinischen Informatik und Bioinformatik/Journal of integrative bioinformatics","issn_l":"1432-4385","issn":["1432-4385","1613-4516"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Integrative Bioinformatics","raw_type":"journal-article"},{"id":"pmid:26528560","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26528560","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":"Journal of integrative bioinformatics","raw_type":null},{"id":"pmid:29550789","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29550789","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":"Journal of integrative bioinformatics","raw_type":null},{"id":"pmh:oai:europepmc.org:5327988","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6167040","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:authors.library.caltech.edu:85875","is_oa":true,"landing_page_url":"https://authors.library.caltech.edu/85875/","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-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article"},{"id":"pmh:oai:doaj.org/article:bdcab993e50c47e18878a612d9a82014","is_oa":true,"landing_page_url":"https://doaj.org/article/bdcab993e50c47e18878a612d9a82014","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Journal of Integrative Bioinformatics, Vol 15, Iss 1 (2018)","raw_type":"article"},{"id":"pmh:oai:eprints.ucl.ac.uk.OAI2:10049230","is_oa":false,"landing_page_url":"https://discovery.ucl.ac.uk/id/eprint/10049230/","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":"   Journal of Integrative Bioinformatics , 15  (1)    , Article 20170086. (2018)      ","raw_type":"Article"},{"id":"pmh:oai:research.vu.nl:publications/e5899f96-6bc7-4038-a3a1-8ec7f3304530","is_oa":true,"landing_page_url":"http://www.scopus.com/inward/citedby.url?scp=85055611421&partnerID=8YFLogxK","pdf_url":null,"source":{"id":"https://openalex.org/S4306400546","display_name":"Digital Academic REpository of VU University Amsterdam (Vrije Universiteit Amsterdam)","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, Cooper, J, K\u00f6nig, M, Moraru, I, Nickerson, D, Le Nov\u00e8re, N, Olivier, B G, Sahle, S, Smith, L & Waltemath, D 2018, 'Simulation Experiment Description Markup Language (SED-ML) Level 1 Version 3 (L1V3)', Journal of Integrative Bioinformatics, vol. 15, no. 1, pp. 1-98. https://doi.org/10.1515/jib-2017-0086","raw_type":"article"},{"id":"pmh:vu:oai:research.vu.nl:publications/e5899f96-6bc7-4038-a3a1-8ec7f3304530","is_oa":true,"landing_page_url":"https://research.vu.nl/en/publications/e5899f96-6bc7-4038-a3a1-8ec7f3304530","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":"Journal of Integrative Bioinformatics, 15(1), 1 - 98. Informationsmanagement in der Biotechnologie e.V. (IMBio e.V.)","raw_type":"info:eu-repo/semantics/article"},{"id":"doi:10.2390/biecoll-jib-2015-262","is_oa":true,"landing_page_url":"https://doi.org/10.2390/biecoll-jib-2015-262","pdf_url":null,"source":{"id":"https://openalex.org/S4306401670","display_name":"PUB \u2013 Publications at Bielefeld University (Bielefeld University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I20121455","host_organization_name":"Bielefeld University","host_organization_lineage":["https://openalex.org/I20121455"],"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":"article-journal"}],"best_oa_location":{"id":"doi:10.1515/jib-2017-0086","is_oa":true,"landing_page_url":"https://doi.org/10.1515/jib-2017-0086","pdf_url":"http://www.degruyter.com/downloadpdf/j/jib.2018.15.issue-1/jib-2017-0086/jib-2017-0086.xml","source":{"id":"https://openalex.org/S4393917359","display_name":"Berichte aus der medizinischen Informatik und Bioinformatik/Journal of integrative bioinformatics","issn_l":"1432-4385","issn":["1432-4385","1613-4516"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Integrative Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2187364252.pdf","grobid_xml":"https://content.openalex.org/works/W2187364252.grobid-xml"},"referenced_works_count":20,"referenced_works":["https://openalex.org/W1645305843","https://openalex.org/W1965014786","https://openalex.org/W2039455512","https://openalex.org/W2049617404","https://openalex.org/W2096951208","https://openalex.org/W2102653059","https://openalex.org/W2107062718","https://openalex.org/W2113777491","https://openalex.org/W2114124738","https://openalex.org/W2126662515","https://openalex.org/W2130618526","https://openalex.org/W2133938042","https://openalex.org/W2145267275","https://openalex.org/W2145435867","https://openalex.org/W2150908245","https://openalex.org/W2170122529","https://openalex.org/W2531582823","https://openalex.org/W4285719527","https://openalex.org/W6637131920","https://openalex.org/W6684944229"],"related_works":["https://openalex.org/W2082621456","https://openalex.org/W2150908245","https://openalex.org/W2981332207","https://openalex.org/W2211443823","https://openalex.org/W2040642413","https://openalex.org/W3048335229","https://openalex.org/W2146744007","https://openalex.org/W2100525485","https://openalex.org/W2890725831","https://openalex.org/W3041939341"],"abstract_inverted_index":{"The":[0,35],"number,":[1],"size":[2],"and":[3,28,32,97,115,153,162,180],"complexity":[4],"of":[5,8,37,40,49,83,137,178],"computational":[6,103],"models":[7,31,41,60,139],"biological":[9],"systems":[10],"are":[11,61,107],"growing":[12],"at":[13],"an":[14],"ever":[15],"increasing":[16],"pace.":[17],"It":[18],"is":[19,42],"imperative":[20],"to":[21,45,55,100,102,140,143,147,156,160,164],"build":[22],"on":[23],"existing":[24,30],"studies":[25],"by":[26,66,174],"reusing":[27],"adapting":[29],"parts":[33],"thereof.":[34],"description":[36],"the":[38,47,57,59,67,84,110,172,176],"structure":[39],"not":[43],"sufficient":[44],"enable":[46],"reproduction":[48],"simulation":[50,96,152],"results.":[51],"One":[52],"also":[53],"needs":[54],"describe":[56],"procedures":[58,155],"subjected":[62],"to,":[63],"as":[64,128],"recommended":[65],"Minimum":[68],"Information":[69],"About":[70],"a":[71,91,149],"Simulation":[72,85],"Experiment":[73,86],"(MIASE)":[74],"guidelines.":[75],"This":[76],"document":[77],"presents":[78],"Level":[79,167],"1":[80,168],"Version":[81,169],"2":[82,170],"Description":[87],"Markup":[88,112],"Language":[89,113],"(SED-ML),":[90],"computer-readable":[92],"format":[93,173],"for":[94],"encoding":[95,125,177],"analysis":[98,154],"experiments":[99],"apply":[101],"models.":[104],"SED-ML":[105,133],"files":[106],"encoded":[108],"in":[109,119],"Extensible":[111],"(XML)":[114],"can":[116],"be":[117],"used":[118],"conjunction":[120],"with":[121],"any":[122],"XML-based":[123],"model":[124],"format,":[126],"such":[127],"CellML":[129],"or":[130],"SBML.":[131],"A":[132],"file":[134],"includes":[135],"details":[136],"which":[138,151,158],"use,":[141],"how":[142,163],"modify":[144],"them":[145],"prior":[146],"executing":[148],"simulation,":[150],"apply,":[157],"results":[159],"extract":[161],"present":[165],"them.":[166],"extends":[171],"allowing":[175],"repeated":[179],"chained":[181],"procedures.":[182]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":7},{"year":2019,"cited_by_count":5},{"year":2018,"cited_by_count":5},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":5},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":3},{"year":2013,"cited_by_count":1}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2016-06-24T00:00:00"}
