{"id":"https://openalex.org/W2195981314","doi":"https://doi.org/10.1186/s12918-015-0240-5","title":"A cell size- and cell cycle-aware stochastic model for predicting time-dynamic gene network activity in individual cells","display_name":"A cell size- and cell cycle-aware stochastic model for predicting time-dynamic gene network activity in individual cells","publication_year":2015,"publication_date":"2015-12-01","ids":{"openalex":"https://openalex.org/W2195981314","doi":"https://doi.org/10.1186/s12918-015-0240-5","mag":"2195981314","pmid":"https://pubmed.ncbi.nlm.nih.gov/26646617"},"language":"en","primary_location":{"id":"doi:10.1186/s12918-015-0240-5","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12918-015-0240-5","pdf_url":"https://bmcsystbiol.biomedcentral.com/track/pdf/10.1186/s12918-015-0240-5","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","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 Systems Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"diamond","oa_url":"https://bmcsystbiol.biomedcentral.com/track/pdf/10.1186/s12918-015-0240-5","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5103536157","display_name":"Ruijie Song","orcid":null},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Ruijie Song","raw_affiliation_strings":["Interdepartmental Program in Computational Biology and Bioinformatics, Yale University, 300 George Street, Suite 501, New Haven, CT, 06511, USA. r.song@yale.edu","Systems Biology Institute, Yale University, 840 West Campus Drive, West Haven, CT, 06516, USA. r.song@yale.edu","Interdepartmental Program in Computational Biology and Bioinformatics, Yale University, 300 George Street, Suite 501, New Haven, CT, 06511, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Interdepartmental Program in Computational Biology and Bioinformatics, Yale University, 300 George Street, Suite 501, New Haven, CT, 06511, USA. r.song@yale.edu","institution_ids":[]},{"raw_affiliation_string":"Systems Biology Institute, Yale University, 840 West Campus Drive, West Haven, CT, 06516, USA. r.song@yale.edu","institution_ids":[]},{"raw_affiliation_string":"Interdepartmental Program in Computational Biology and Bioinformatics, Yale University, 300 George Street, Suite 501, New Haven, CT, 06511, USA","institution_ids":["https://openalex.org/I32971472"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021147208","display_name":"Weilin Peng","orcid":"https://orcid.org/0000-0003-3921-6119"},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Weilin Peng","raw_affiliation_strings":["Department of Molecular Cellular and Developmental Biology, Yale University, 219 Prospect Street, New Haven, CT, 06511, USA. weilin.peng@yale.edu","Systems Biology Institute, Yale University, 840 West Campus Drive, West Haven, CT, 06516, USA. weilin.peng@yale.edu","Systems Biology Institute, Yale University, 840 West Campus Drive, West Haven, CT, 06516, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Cellular and Developmental Biology, Yale University, 219 Prospect Street, New Haven, CT, 06511, USA. weilin.peng@yale.edu","institution_ids":[]},{"raw_affiliation_string":"Systems Biology Institute, Yale University, 840 West Campus Drive, West Haven, CT, 06516, USA. weilin.peng@yale.edu","institution_ids":[]},{"raw_affiliation_string":"Systems Biology Institute, Yale University, 840 West Campus Drive, West Haven, CT, 06516, USA","institution_ids":["https://openalex.org/I32971472"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100442353","display_name":"Ping Liu","orcid":"https://orcid.org/0000-0002-1721-3593"},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ping Liu","raw_affiliation_strings":["Department of Molecular Cellular and Developmental Biology, Yale University, 219 Prospect Street, New Haven, CT, 06511, USA. ping.liu@yale.edu","Systems Biology Institute, Yale University, 840 West Campus Drive, West Haven, CT, 06516, USA. ping.liu@yale.edu","Systems Biology Institute, Yale University, 840 West Campus Drive, West Haven, CT, 06516, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Cellular and Developmental Biology, Yale University, 219 Prospect Street, New Haven, CT, 06511, USA. ping.liu@yale.edu","institution_ids":[]},{"raw_affiliation_string":"Systems Biology Institute, Yale University, 840 West Campus Drive, West Haven, CT, 06516, USA. ping.liu@yale.edu","institution_ids":[]},{"raw_affiliation_string":"Systems Biology Institute, Yale University, 840 West Campus Drive, West Haven, CT, 06516, USA","institution_ids":["https://openalex.org/I32971472"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5003715208","display_name":"Murat A\u00e7ar","orcid":"https://orcid.org/0000-0003-3289-8751"},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Murat Acar","raw_affiliation_strings":["Department of Molecular Cellular and Developmental Biology, Yale University, 219 Prospect Street, New Haven, CT, 06511, USA. murat.acar@yale.edu","Department of Physics, Yale University, 217 Prospect Street, New Haven, CT, 06511, USA. murat.acar@yale.edu","Interdepartmental Program in Computational Biology and Bioinformatics, Yale University, 300 George Street, Suite 501, New Haven, CT, 06511, USA. murat.acar@yale.edu","Systems Biology Institute, Yale University, 840 West Campus Drive, West Haven, CT, 06516, USA. murat.acar@yale.edu","Systems Biology Institute, Yale University, 840 West Campus Drive, West Haven, CT, 06516, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Cellular and Developmental Biology, Yale University, 219 Prospect Street, New Haven, CT, 06511, USA. murat.acar@yale.edu","institution_ids":[]},{"raw_affiliation_string":"Department of Physics, Yale University, 217 Prospect Street, New Haven, CT, 06511, USA. murat.acar@yale.edu","institution_ids":[]},{"raw_affiliation_string":"Interdepartmental Program in Computational Biology and Bioinformatics, Yale University, 300 George Street, Suite 501, New Haven, CT, 06511, USA. murat.acar@yale.edu","institution_ids":[]},{"raw_affiliation_string":"Systems Biology Institute, Yale University, 840 West Campus Drive, West Haven, CT, 06516, USA. murat.acar@yale.edu","institution_ids":[]},{"raw_affiliation_string":"Systems Biology Institute, Yale University, 840 West Campus Drive, West Haven, CT, 06516, USA","institution_ids":["https://openalex.org/I32971472"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5103536157"],"corresponding_institution_ids":["https://openalex.org/I32971472"],"apc_list":null,"apc_paid":null,"fwci":0.6023,"has_fulltext":true,"cited_by_count":14,"citation_normalized_percentile":{"value":0.69822715,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"9","issue":"1","first_page":"91","last_page":"91"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.8029000163078308,"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":0.8029000163078308,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.12250000238418579,"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/T10497","display_name":"Fungal and yeast genetics research","score":0.018200000748038292,"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/systems-biology","display_name":"Systems biology","score":0.6827892065048218},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.6139580607414246},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5309388637542725},{"id":"https://openalex.org/keywords/stochastic-modelling","display_name":"Stochastic modelling","score":0.522266685962677},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.482172429561615},{"id":"https://openalex.org/keywords/cell-cycle","display_name":"Cell cycle","score":0.4312889575958252},{"id":"https://openalex.org/keywords/dynamic-network-analysis","display_name":"Dynamic network analysis","score":0.4182610809803009},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.37723883986473083},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.36953723430633545},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.20305055379867554},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.1957261562347412},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.15946894884109497},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.12596622109413147},{"id":"https://openalex.org/keywords/computer-network","display_name":"Computer network","score":0.09062656760215759}],"concepts":[{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.6827892065048218},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.6139580607414246},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5309388637542725},{"id":"https://openalex.org/C127491075","wikidata":"https://www.wikidata.org/wiki/Q7617825","display_name":"Stochastic modelling","level":2,"score":0.522266685962677},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.482172429561615},{"id":"https://openalex.org/C29537977","wikidata":"https://www.wikidata.org/wiki/Q188941","display_name":"Cell cycle","level":3,"score":0.4312889575958252},{"id":"https://openalex.org/C13540734","wikidata":"https://www.wikidata.org/wiki/Q5318996","display_name":"Dynamic network analysis","level":2,"score":0.4182610809803009},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.37723883986473083},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.36953723430633545},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.20305055379867554},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.1957261562347412},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.15946894884109497},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.12596622109413147},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.09062656760215759}],"mesh":[{"descriptor_ui":"D002453","descriptor_name":"Cell Cycle","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002453","descriptor_name":"Cell Cycle","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002453","descriptor_name":"Cell Cycle","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002455","descriptor_name":"Cell Division","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002455","descriptor_name":"Cell Division","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002455","descriptor_name":"Cell Division","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004261","descriptor_name":"DNA Replication","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004261","descriptor_name":"DNA Replication","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004261","descriptor_name":"DNA Replication","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005690","descriptor_name":"Galactose","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005690","descriptor_name":"Galactose","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005690","descriptor_name":"Galactose","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005690","descriptor_name":"Galactose","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D005690","descriptor_name":"Galactose","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D005690","descriptor_name":"Galactose","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D005690","descriptor_name":"Galactose","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D005690","descriptor_name":"Galactose","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D005690","descriptor_name":"Galactose","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D013269","descriptor_name":"Stochastic Processes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013269","descriptor_name":"Stochastic Processes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013269","descriptor_name":"Stochastic Processes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019070","descriptor_name":"Cell Lineage","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019070","descriptor_name":"Cell Lineage","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019070","descriptor_name":"Cell Lineage","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D048429","descriptor_name":"Cell Size","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D048429","descriptor_name":"Cell Size","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D048429","descriptor_name":"Cell Size","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1186/s12918-015-0240-5","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12918-015-0240-5","pdf_url":"https://bmcsystbiol.biomedcentral.com/track/pdf/10.1186/s12918-015-0240-5","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","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 Systems Biology","raw_type":"journal-article"},{"id":"pmid:26646617","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26646617","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 systems biology","raw_type":null},{"id":"pmh:oai:europepmc.org:3650004","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4673848","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12918-015-0240-5","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12918-015-0240-5","pdf_url":"https://bmcsystbiol.biomedcentral.com/track/pdf/10.1186/s12918-015-0240-5","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","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 Systems Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2486533467","display_name":null,"funder_award_id":"CNS 08-21132","funder_id":"https://openalex.org/F4320308380","funder_display_name":"Yale University"},{"id":"https://openalex.org/G7674791671","display_name":null,"funder_award_id":"CNS 08-21132","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320308380","display_name":"Yale University","ror":"https://ror.org/03v76x132"},{"id":"https://openalex.org/F4320332618","display_name":"Faculty of Arts and Sciences","ror":"https://ror.org/03vek6s52"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2195981314.pdf","grobid_xml":"https://content.openalex.org/works/W2195981314.grobid-xml"},"referenced_works_count":41,"referenced_works":["https://openalex.org/W1511678890","https://openalex.org/W1599969036","https://openalex.org/W1915061350","https://openalex.org/W1964947431","https://openalex.org/W1993428939","https://openalex.org/W1994032485","https://openalex.org/W1999777663","https://openalex.org/W2009307035","https://openalex.org/W2013244831","https://openalex.org/W2013947447","https://openalex.org/W2034920914","https://openalex.org/W2037335850","https://openalex.org/W2037685552","https://openalex.org/W2040889971","https://openalex.org/W2044692345","https://openalex.org/W2046147194","https://openalex.org/W2054484919","https://openalex.org/W2058638956","https://openalex.org/W2059719532","https://openalex.org/W2072003240","https://openalex.org/W2077670298","https://openalex.org/W2079944698","https://openalex.org/W2084924279","https://openalex.org/W2090732700","https://openalex.org/W2109281577","https://openalex.org/W2114012241","https://openalex.org/W2114390747","https://openalex.org/W2122366486","https://openalex.org/W2126921853","https://openalex.org/W2128563079","https://openalex.org/W2152221712","https://openalex.org/W2155418451","https://openalex.org/W2163918103","https://openalex.org/W2165798086","https://openalex.org/W2168846334","https://openalex.org/W2170233132","https://openalex.org/W2170694399","https://openalex.org/W2171074980","https://openalex.org/W2171280873","https://openalex.org/W2171327609","https://openalex.org/W4255153794"],"related_works":["https://openalex.org/W2156421048","https://openalex.org/W2135896045","https://openalex.org/W2032799661","https://openalex.org/W2884256268","https://openalex.org/W2131025197","https://openalex.org/W2171763327","https://openalex.org/W2154615478","https://openalex.org/W2031892952","https://openalex.org/W3108451992","https://openalex.org/W2511617859"],"abstract_inverted_index":{"BACKGROUND:":[0],"Despite":[1],"the":[2,82,90,94,108,118,123,140,147,174,188],"development":[3],"of":[4,53,71,96,111,122,131,146,173],"various":[5],"modeling":[6,185],"approaches":[7],"to":[8,45,92,117,166,187],"predict":[9],"gene":[10,48,169],"network":[11,49,121,150,170],"activity,":[12],"a":[13,37,128,180],"time":[14],"dynamic":[15],"stochastic":[16,38,72,184],"model":[17,40,56,83,141,161,167],"taking":[18],"into":[19],"account":[20],"real-time":[21],"changes":[22,58],"in":[23,59,171],"cell":[24,27,60,65,80,86,99,103],"volume":[25],"and":[26,64,67,100,134,182],"cycle":[28],"stages":[29],"is":[30],"still":[31],"missing.":[32],"RESULTS:":[33],"Here":[34],"we":[35,114],"present":[36],"single-cell":[39,149],"that":[41],"can":[42,84,162],"be":[43,164],"applied":[44,115],"any":[46,51,97,168,172],"eukaryotic":[47],"with":[50],"number":[52],"components.":[54],"The":[55],"tracks":[57],"volume,":[61],"DNA":[62],"replication,":[63],"division,":[66,81],"dynamically":[68],"adjusts":[69],"rates":[70],"reactions":[73],"based":[74],"on":[75],"this":[76],"information.":[77],"By":[78],"tracking":[79],"maintain":[85],"lineage":[87,104],"information,":[88],"allowing":[89],"researcher":[91],"trace":[93],"descendants":[95],"single":[98],"therefore":[101],"study":[102],"effects.":[105],"To":[106],"test":[107],"predictive":[109],"power":[110],"our":[112],"model,":[113],"it":[116],"canonical":[119],"galactose":[120,137],"yeast":[124],"Saccharomyces":[125],"cerevisiae.":[126],"Using":[127],"minimal":[129],"set":[130],"free":[132],"parameters":[133],"across":[135],"several":[136,144],"induction":[138],"conditions,":[139],"effectively":[142],"captured":[143],"details":[145],"experimentally-obtained":[148],"activity":[151],"levels":[152],"as":[153,155],"well":[154],"phenotypic":[156],"switching":[157],"rates.":[158],"CONCLUSION:":[159],"Our":[160],"readily":[163],"customized":[165],"commonly":[175],"used":[176],"cells":[177],"types,":[178],"offering":[179],"novel":[181],"user-friendly":[183],"capability":[186],"systems":[189],"biology":[190],"field.":[191]},"counts_by_year":[{"year":2022,"cited_by_count":5},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":1}],"updated_date":"2026-04-29T09:16:38.111599","created_date":"2025-10-10T00:00:00"}
