{"id":"https://openalex.org/W4226518778","doi":"https://doi.org/10.1093/nar/gkac286","title":"BioUML\u2014towards a universal research platform","display_name":"BioUML\u2014towards a universal research platform","publication_year":2022,"publication_date":"2022-04-14","ids":{"openalex":"https://openalex.org/W4226518778","doi":"https://doi.org/10.1093/nar/gkac286","pmid":"https://pubmed.ncbi.nlm.nih.gov/35536253"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkac286","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkac286","pdf_url":"https://academic.oup.com/nar/article-pdf/50/W1/W124/44376679/gkac286.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/nar/article-pdf/50/W1/W124/44376679/gkac286.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5081391218","display_name":"Fedor Kolpakov","orcid":"https://orcid.org/0000-0002-0396-0256"},"institutions":[{"id":"https://openalex.org/I4210093196","display_name":"Sirius University of Science and Technology","ror":"https://ror.org/00n51jg89","country_code":"RU","type":"education","lineage":["https://openalex.org/I4210093196"]},{"id":"https://openalex.org/I4210127387","display_name":"Siberian Branch of the Russian Academy of Sciences","ror":"https://ror.org/02frkq021","country_code":"RU","type":"funder","lineage":["https://openalex.org/I1313323035","https://openalex.org/I4210127387"]},{"id":"https://openalex.org/I4210137651","display_name":"Federal Research Center for Information and Computational Technologies","ror":"https://ror.org/02x3mf211","country_code":"RU","type":"facility","lineage":["https://openalex.org/I4210137651"]},{"id":"https://openalex.org/I4843557","display_name":"Budker Institute of Nuclear Physics","ror":"https://ror.org/03e5eem51","country_code":"RU","type":"facility","lineage":["https://openalex.org/I1313323035","https://openalex.org/I1313323035","https://openalex.org/I4210096333","https://openalex.org/I4210127387","https://openalex.org/I4843557"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"Fedor Kolpakov","raw_affiliation_strings":["Budker Institute of Nuclear Physics SB RAS , Novosibirsk 630090, Russian Federation","Federal Research Center for Information and Computational Technologies , Novosibirsk 630090, Russian Federation","Sirius University of Science and Technology , Sochi 354340, Russian Federation"],"raw_orcid":"https://orcid.org/0000-0002-0396-0256","affiliations":[{"raw_affiliation_string":"Budker Institute of Nuclear Physics SB RAS , Novosibirsk 630090, Russian Federation","institution_ids":["https://openalex.org/I4843557","https://openalex.org/I4210127387"]},{"raw_affiliation_string":"Federal Research Center for Information and Computational Technologies , Novosibirsk 630090, Russian Federation","institution_ids":["https://openalex.org/I4210137651"]},{"raw_affiliation_string":"Sirius University of Science and Technology , Sochi 354340, Russian Federation","institution_ids":["https://openalex.org/I4210093196"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041561056","display_name":"Ilya R. Akberdin","orcid":"https://orcid.org/0000-0003-0010-8620"},"institutions":[{"id":"https://openalex.org/I188973947","display_name":"Novosibirsk State University","ror":"https://ror.org/04t2ss102","country_code":"RU","type":"education","lineage":["https://openalex.org/I188973947"]},{"id":"https://openalex.org/I4210093196","display_name":"Sirius University of Science and Technology","ror":"https://ror.org/00n51jg89","country_code":"RU","type":"education","lineage":["https://openalex.org/I4210093196"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"Ilya Akberdin","raw_affiliation_strings":["Biosoft.ru, LLC , Novosibirsk 630058, Russian Federation","Novosibirsk State University , Novosibirsk 630090, Russian Federation","Sirius University of Science and Technology , Sochi 354340, Russian Federation"],"raw_orcid":"https://orcid.org/0000-0003-0010-8620","affiliations":[{"raw_affiliation_string":"Biosoft.ru, LLC , Novosibirsk 630058, Russian Federation","institution_ids":[]},{"raw_affiliation_string":"Novosibirsk State University , Novosibirsk 630090, Russian Federation","institution_ids":["https://openalex.org/I188973947"]},{"raw_affiliation_string":"Sirius University of Science and Technology , Sochi 354340, Russian Federation","institution_ids":["https://openalex.org/I4210093196"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088736662","display_name":"Ilya Kiselev","orcid":"https://orcid.org/0000-0003-1057-5986"},"institutions":[{"id":"https://openalex.org/I4210093196","display_name":"Sirius University of Science and Technology","ror":"https://ror.org/00n51jg89","country_code":"RU","type":"education","lineage":["https://openalex.org/I4210093196"]},{"id":"https://openalex.org/I4210127387","display_name":"Siberian Branch of the Russian Academy of Sciences","ror":"https://ror.org/02frkq021","country_code":"RU","type":"funder","lineage":["https://openalex.org/I1313323035","https://openalex.org/I4210127387"]},{"id":"https://openalex.org/I4210137651","display_name":"Federal Research Center for Information and Computational Technologies","ror":"https://ror.org/02x3mf211","country_code":"RU","type":"facility","lineage":["https://openalex.org/I4210137651"]},{"id":"https://openalex.org/I4843557","display_name":"Budker Institute of Nuclear Physics","ror":"https://ror.org/03e5eem51","country_code":"RU","type":"facility","lineage":["https://openalex.org/I1313323035","https://openalex.org/I1313323035","https://openalex.org/I4210096333","https://openalex.org/I4210127387","https://openalex.org/I4843557"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"Ilya Kiselev","raw_affiliation_strings":["Budker Institute of Nuclear Physics SB RAS , Novosibirsk 630090, Russian Federation","Federal Research Center for Information and Computational Technologies , Novosibirsk 630090, Russian Federation","Sirius University of Science and Technology , Sochi 354340, Russian Federation"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Budker Institute of Nuclear Physics SB RAS , Novosibirsk 630090, Russian Federation","institution_ids":["https://openalex.org/I4843557","https://openalex.org/I4210127387"]},{"raw_affiliation_string":"Federal Research Center for Information and Computational Technologies , Novosibirsk 630090, Russian Federation","institution_ids":["https://openalex.org/I4210137651"]},{"raw_affiliation_string":"Sirius University of Science and Technology , Sochi 354340, Russian Federation","institution_ids":["https://openalex.org/I4210093196"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008033532","display_name":"Semyon Kolmykov","orcid":"https://orcid.org/0000-0002-9259-0495"},"institutions":[{"id":"https://openalex.org/I4210093196","display_name":"Sirius University of Science and Technology","ror":"https://ror.org/00n51jg89","country_code":"RU","type":"education","lineage":["https://openalex.org/I4210093196"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"Semyon Kolmykov","raw_affiliation_strings":["Biosoft.ru, LLC , Novosibirsk 630058, Russian Federation","Sirius University of Science and Technology , Sochi 354340, Russian Federation"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biosoft.ru, LLC , Novosibirsk 630058, Russian Federation","institution_ids":[]},{"raw_affiliation_string":"Sirius University of Science and Technology , Sochi 354340, Russian Federation","institution_ids":["https://openalex.org/I4210093196"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5047929867","display_name":"Yury V. Kondrakhin","orcid":null},"institutions":[{"id":"https://openalex.org/I4210137651","display_name":"Federal Research Center for Information and Computational Technologies","ror":"https://ror.org/02x3mf211","country_code":"RU","type":"facility","lineage":["https://openalex.org/I4210137651"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"Yury Kondrakhin","raw_affiliation_strings":["Biosoft.ru, LLC , Novosibirsk 630058, Russian Federation","Federal Research Center for Information and Computational Technologies , Novosibirsk 630090, Russian Federation"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biosoft.ru, LLC , Novosibirsk 630058, Russian Federation","institution_ids":[]},{"raw_affiliation_string":"Federal Research Center for Information and Computational Technologies , Novosibirsk 630090, Russian Federation","institution_ids":["https://openalex.org/I4210137651"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063605091","display_name":"Mikhail A. Kulyashov","orcid":"https://orcid.org/0000-0002-4808-0922"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Mikhail Kulyashov","raw_affiliation_strings":["Biosoft.ru, LLC , Novosibirsk 630058, Russian Federation"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biosoft.ru, LLC , Novosibirsk 630058, Russian Federation","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066125570","display_name":"Elena Kutumova","orcid":"https://orcid.org/0000-0001-7746-5760"},"institutions":[{"id":"https://openalex.org/I4210093196","display_name":"Sirius University of Science and Technology","ror":"https://ror.org/00n51jg89","country_code":"RU","type":"education","lineage":["https://openalex.org/I4210093196"]},{"id":"https://openalex.org/I4210137651","display_name":"Federal Research Center for Information and Computational Technologies","ror":"https://ror.org/02x3mf211","country_code":"RU","type":"facility","lineage":["https://openalex.org/I4210137651"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"Elena Kutumova","raw_affiliation_strings":["Federal Research Center for Information and Computational Technologies , Novosibirsk 630090, Russian Federation","Sirius University of Science and Technology , Sochi 354340, Russian Federation"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Federal Research Center for Information and Computational Technologies , Novosibirsk 630090, Russian Federation","institution_ids":["https://openalex.org/I4210137651"]},{"raw_affiliation_string":"Sirius University of Science and Technology , Sochi 354340, Russian Federation","institution_ids":["https://openalex.org/I4210093196"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076464196","display_name":"Sergey Pintus","orcid":null},"institutions":[{"id":"https://openalex.org/I4210093196","display_name":"Sirius University of Science and Technology","ror":"https://ror.org/00n51jg89","country_code":"RU","type":"education","lineage":["https://openalex.org/I4210093196"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"Sergey Pintus","raw_affiliation_strings":["Sirius University of Science and Technology , Sochi 354340, Russian Federation"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Sirius University of Science and Technology , Sochi 354340, Russian Federation","institution_ids":["https://openalex.org/I4210093196"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055277352","display_name":"Anna S. Ryabova","orcid":null},"institutions":[{"id":"https://openalex.org/I4210093196","display_name":"Sirius University of Science and Technology","ror":"https://ror.org/00n51jg89","country_code":"RU","type":"education","lineage":["https://openalex.org/I4210093196"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"Anna Ryabova","raw_affiliation_strings":["Sirius University of Science and Technology , Sochi 354340, Russian Federation"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Sirius University of Science and Technology , Sochi 354340, Russian Federation","institution_ids":["https://openalex.org/I4210093196"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040778329","display_name":"Ruslan Sharipov","orcid":"https://orcid.org/0000-0003-2182-5493"},"institutions":[{"id":"https://openalex.org/I188973947","display_name":"Novosibirsk State University","ror":"https://ror.org/04t2ss102","country_code":"RU","type":"education","lineage":["https://openalex.org/I188973947"]},{"id":"https://openalex.org/I4210093196","display_name":"Sirius University of Science and Technology","ror":"https://ror.org/00n51jg89","country_code":"RU","type":"education","lineage":["https://openalex.org/I4210093196"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"Ruslan Sharipov","raw_affiliation_strings":["Biosoft.ru, LLC , Novosibirsk 630058, Russian Federation","Novosibirsk State University , Novosibirsk 630090, Russian Federation","Sirius University of Science and Technology , Sochi 354340, Russian Federation"],"raw_orcid":"https://orcid.org/0000-0003-2182-5493","affiliations":[{"raw_affiliation_string":"Biosoft.ru, LLC , Novosibirsk 630058, Russian Federation","institution_ids":[]},{"raw_affiliation_string":"Novosibirsk State University , Novosibirsk 630090, Russian Federation","institution_ids":["https://openalex.org/I188973947"]},{"raw_affiliation_string":"Sirius University of Science and Technology , Sochi 354340, Russian Federation","institution_ids":["https://openalex.org/I4210093196"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072702454","display_name":"Ivan Yevshin","orcid":"https://orcid.org/0000-0001-7687-8002"},"institutions":[{"id":"https://openalex.org/I4210093196","display_name":"Sirius University of Science and Technology","ror":"https://ror.org/00n51jg89","country_code":"RU","type":"education","lineage":["https://openalex.org/I4210093196"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"Ivan Yevshin","raw_affiliation_strings":["Biosoft.ru, LLC , Novosibirsk 630058, Russian Federation","Sirius University of Science and Technology , Sochi 354340, Russian Federation"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biosoft.ru, LLC , Novosibirsk 630058, Russian Federation","institution_ids":[]},{"raw_affiliation_string":"Sirius University of Science and Technology , Sochi 354340, Russian Federation","institution_ids":["https://openalex.org/I4210093196"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5096167274","display_name":"Sergey Zhatchenko","orcid":null},"institutions":[{"id":"https://openalex.org/I4210093196","display_name":"Sirius University of Science and Technology","ror":"https://ror.org/00n51jg89","country_code":"RU","type":"education","lineage":["https://openalex.org/I4210093196"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"Sergey Zhatchenko","raw_affiliation_strings":["Biosoft.ru, LLC , Novosibirsk 630058, Russian Federation","Sirius University of Science and Technology , Sochi 354340, Russian Federation"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biosoft.ru, LLC , Novosibirsk 630058, Russian Federation","institution_ids":[]},{"raw_affiliation_string":"Sirius University of Science and Technology , Sochi 354340, Russian Federation","institution_ids":["https://openalex.org/I4210093196"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5016954113","display_name":"Alexander Kel","orcid":"https://orcid.org/0000-0001-6775-2467"},"institutions":[{"id":"https://openalex.org/I4210123556","display_name":"GeneXplain (Germany)","ror":"https://ror.org/02qeyb550","country_code":"DE","type":"company","lineage":["https://openalex.org/I4210123556"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Alexander Kel","raw_affiliation_strings":["Biosoft.ru, LLC , Novosibirsk 630058, Russian Federation","geneXplain GmbH , Wolfenb\u00fcttel 38302, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biosoft.ru, LLC , Novosibirsk 630058, Russian Federation","institution_ids":[]},{"raw_affiliation_string":"geneXplain GmbH , Wolfenb\u00fcttel 38302, Germany","institution_ids":["https://openalex.org/I4210123556"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":13,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":2.772,"has_fulltext":true,"cited_by_count":37,"citation_normalized_percentile":{"value":0.91486102,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":97,"max":99},"biblio":{"volume":"50","issue":"W1","first_page":"W124","last_page":"W131"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11663","display_name":"Viral Infectious Diseases and Gene Expression in Insects","score":0.9868999719619751,"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/T11663","display_name":"Viral Infectious Diseases and Gene Expression in Insects","score":0.9868999719619751,"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/T13280","display_name":"Biomedical and Engineering Education","score":0.9682000279426575,"subfield":{"id":"https://openalex.org/subfields/2204","display_name":"Biomedical Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.9657999873161316,"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/biology","display_name":"Biology","score":0.9333154559135437},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5175637602806091}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.9333154559135437},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5175637602806091}],"mesh":[{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000453","qualifier_name":"epidemiology","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000453","qualifier_name":"epidemiology","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000453","qualifier_name":"epidemiology","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":"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":"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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/nar/gkac286","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkac286","pdf_url":"https://academic.oup.com/nar/article-pdf/50/W1/W124/44376679/gkac286.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:35536253","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35536253","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:9252820","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9252820","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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Nucleic Acids Res","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gkac286","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkac286","pdf_url":"https://academic.oup.com/nar/article-pdf/50/W1/W124/44376679/gkac286.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being","score":0.49000000953674316}],"awards":[{"id":"https://openalex.org/G8151176108","display_name":null,"funder_award_id":"19-72-20114","funder_id":"https://openalex.org/F4320324099","funder_display_name":"Russian Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320324099","display_name":"Russian Science Foundation","ror":"https://ror.org/03y2gwe85"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4226518778.pdf","grobid_xml":"https://content.openalex.org/works/W4226518778.grobid-xml"},"referenced_works_count":41,"referenced_works":["https://openalex.org/W25364003","https://openalex.org/W1592868488","https://openalex.org/W2038264484","https://openalex.org/W2048465561","https://openalex.org/W2097464861","https://openalex.org/W2099396594","https://openalex.org/W2102653059","https://openalex.org/W2134394193","https://openalex.org/W2135030836","https://openalex.org/W2137881949","https://openalex.org/W2159675211","https://openalex.org/W2302501749","https://openalex.org/W2326454698","https://openalex.org/W2520812741","https://openalex.org/W2561415221","https://openalex.org/W2605897695","https://openalex.org/W2787597215","https://openalex.org/W2810755205","https://openalex.org/W2884300959","https://openalex.org/W2886900553","https://openalex.org/W2915479314","https://openalex.org/W2917207851","https://openalex.org/W2936794267","https://openalex.org/W2947660247","https://openalex.org/W2980260871","https://openalex.org/W3016555230","https://openalex.org/W3034262705","https://openalex.org/W3038788053","https://openalex.org/W3087568771","https://openalex.org/W3095077518","https://openalex.org/W3108737349","https://openalex.org/W3132502413","https://openalex.org/W3132826558","https://openalex.org/W3135257712","https://openalex.org/W3149892364","https://openalex.org/W3196682450","https://openalex.org/W3202044355","https://openalex.org/W3211402536","https://openalex.org/W3213480831","https://openalex.org/W4241685680","https://openalex.org/W6891794584"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2082860237","https://openalex.org/W2119695867","https://openalex.org/W2130076355","https://openalex.org/W1990804418","https://openalex.org/W1993764875","https://openalex.org/W2046158694","https://openalex.org/W2788277189","https://openalex.org/W2013243191","https://openalex.org/W1971568933"],"abstract_inverted_index":{"BioUML":[0,41,64,84,90,101,117,121,158,181],"(https://www.biouml.org)-is":[1],"a":[2,176],"web-based":[3],"integrated":[4,44,92,153],"platform":[5,85,185],"for":[6,65,148,190],"systems":[7],"biology":[8],"and":[9,16,54,68,76,96,107,120,134],"data":[10,66,160],"analysis.":[11],"It":[12],"supports":[13,159],"visual":[14],"modelling":[15],"construction":[17],"of":[18,32,63,70,179],"hierarchical":[19],"biological":[20],"models":[21,31,53],"that":[22,186],"allow":[23],"us":[24],"to":[25],"construct":[26],"the":[27,61,83,94,116,180],"most":[28],"complex":[29],"modular":[30],"blood":[33],"pressure":[34],"regulation,":[35],"skeletal":[36],"muscle":[37],"metabolism,":[38],"COVID-19":[39],"epidemiology.":[40],"has":[42],"been":[43],"with":[45,93,105],"git":[46],"repositories":[47],"where":[48],"users":[49],"can":[50,79,112,123,136,187],"store":[51],"their":[52],"other":[55],"data.":[56],"We":[57],"have":[58,174],"also":[59],"expanded":[60],"capabilities":[62],"analysis":[67],"visualization":[69],"biomedical":[71],"data:":[72],"(i)":[73],"any":[74],"programs":[75],"Jupyter":[77],"kernels":[78],"be":[80,113,124,137,188],"plugged":[81],"into":[82],"using":[86,129,162],"Docker":[87],"technology;":[88],"(ii)":[89],"is":[91],"Galaxy":[95,97],"Tool":[98],"Shed;":[99],"(iii)":[100],"provides":[102],"two-way":[103],"integration":[104],"R":[106],"Python":[108],"(Jupyter":[109],"notebooks):":[110],"scripts":[111],"executed":[114],"on":[115],"web":[118],"pages,":[119],"functions":[122],"called":[125],"from":[126],"scripts;":[127],"(iv)":[128],"plug-in":[130],"architecture,":[131],"specialized":[132],"viewers":[133,147],"editors":[135],"added.":[138],"For":[139],"example,":[140],"powerful":[141],"genome":[142],"browsers":[143],"as":[144,146],"well":[145],"molecular":[149],"3D":[150],"structure":[151],"are":[152],"in":[154],"this":[155],"way;":[156],"(v)":[157],"analyses":[161],"workflows":[163],"(own":[164],"format,":[165],"Galaxy,":[166],"CWL,":[167],"BPMN,":[168],"nextFlow).":[169],"Using":[170],"these":[171],"capabilities,":[172],"we":[173],"initiated":[175],"new":[177],"branch":[178],"development-u-science-a":[182],"universal":[183],"scientific":[184],"configured":[189],"specific":[191],"research":[192],"requirements.":[193]},"counts_by_year":[{"year":2026,"cited_by_count":5},{"year":2025,"cited_by_count":10},{"year":2024,"cited_by_count":12},{"year":2023,"cited_by_count":4},{"year":2022,"cited_by_count":6}],"updated_date":"2026-06-18T08:10:14.011955","created_date":"2025-10-10T00:00:00"}