{"id":"https://openalex.org/W2800947865","doi":"https://doi.org/10.1186/s12859-018-2072-y","title":"Automated transition analysis of activated gene regulation during diauxic nutrient shift in Escherichia coli and adipocyte differentiation in mouse cells","display_name":"Automated transition analysis of activated gene regulation during diauxic nutrient shift in Escherichia coli and adipocyte differentiation in mouse cells","publication_year":2018,"publication_date":"2018-05-01","ids":{"openalex":"https://openalex.org/W2800947865","doi":"https://doi.org/10.1186/s12859-018-2072-y","mag":"2800947865","pmid":"https://pubmed.ncbi.nlm.nih.gov/29745848"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-018-2072-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2072-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2072-y","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2072-y","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5110041664","display_name":"Yoichi Takenaka","orcid":null},"institutions":[{"id":"https://openalex.org/I56624758","display_name":"Kansai University","ror":"https://ror.org/03xg1f311","country_code":"JP","type":"education","lineage":["https://openalex.org/I56624758"]},{"id":"https://openalex.org/I98285908","display_name":"The University of Osaka","ror":"https://ror.org/035t8zc32","country_code":"JP","type":"education","lineage":["https://openalex.org/I98285908"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Yoichi Takenaka","raw_affiliation_strings":["Faculty of Informatics, Kansai University, Ryousenji 2-1-1, Takatsuki, Osaka, Japan. takenaka@kansai-u.ac.jp","Graduate School of Information Science and Technology, Osaka University, Yamadaoka 1-5, Suita, Osaka, Japan. takenaka@kansai-u.ac.jp","Graduate School of Medicine, Osaka University, Yamadaoka 2, Suita, Osaka, Japan. takenaka@kansai-u.ac.jp","Faculty of Informatics, Kansai University, Ryousenji 2-1-1, Takatsuki, Osaka, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Faculty of Informatics, Kansai University, Ryousenji 2-1-1, Takatsuki, Osaka, Japan. takenaka@kansai-u.ac.jp","institution_ids":["https://openalex.org/I56624758"]},{"raw_affiliation_string":"Graduate School of Information Science and Technology, Osaka University, Yamadaoka 1-5, Suita, Osaka, Japan. takenaka@kansai-u.ac.jp","institution_ids":["https://openalex.org/I56624758","https://openalex.org/I98285908"]},{"raw_affiliation_string":"Graduate School of Medicine, Osaka University, Yamadaoka 2, Suita, Osaka, Japan. takenaka@kansai-u.ac.jp","institution_ids":["https://openalex.org/I56624758","https://openalex.org/I98285908"]},{"raw_affiliation_string":"Faculty of Informatics, Kansai University, Ryousenji 2-1-1, Takatsuki, Osaka, Japan","institution_ids":["https://openalex.org/I56624758"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077948496","display_name":"Kazuma Mikami","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Kazuma Mikami","raw_affiliation_strings":["Recruit Holdings Co. Ltd., Marunouchi 1-9-2, Chiyoda, Tokyo, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Recruit Holdings Co. Ltd., Marunouchi 1-9-2, Chiyoda, Tokyo, Japan","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044081384","display_name":"Shigeto Seno","orcid":"https://orcid.org/0000-0003-3861-6444"},"institutions":[{"id":"https://openalex.org/I98285908","display_name":"The University of Osaka","ror":"https://ror.org/035t8zc32","country_code":"JP","type":"education","lineage":["https://openalex.org/I98285908"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Shigeto Seno","raw_affiliation_strings":["Graduate School of Information Science and Technology, Osaka University, Yamadaoka 1-5, Suita, Osaka, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Graduate School of Information Science and Technology, Osaka University, Yamadaoka 1-5, Suita, Osaka, Japan","institution_ids":["https://openalex.org/I98285908"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5007909918","display_name":"Hideo Matsuda","orcid":"https://orcid.org/0000-0002-4701-3779"},"institutions":[{"id":"https://openalex.org/I98285908","display_name":"The University of Osaka","ror":"https://ror.org/035t8zc32","country_code":"JP","type":"education","lineage":["https://openalex.org/I98285908"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Hideo Matsuda","raw_affiliation_strings":["Graduate School of Information Science and Technology, Osaka University, Yamadaoka 1-5, Suita, Osaka, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Graduate School of Information Science and Technology, Osaka University, Yamadaoka 1-5, Suita, Osaka, Japan","institution_ids":["https://openalex.org/I98285908"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5110041664"],"corresponding_institution_ids":["https://openalex.org/I56624758","https://openalex.org/I98285908"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.03179932,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"19","issue":"S4","first_page":"89","last_page":"89"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.6743000149726868,"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":0.6743000149726868,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.17910000681877136,"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":0.03579999879002571,"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/gene-expression","display_name":"Gene expression","score":0.657394528388977},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6199362874031067},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.591615617275238},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5774120688438416},{"id":"https://openalex.org/keywords/regulation-of-gene-expression","display_name":"Regulation of gene expression","score":0.5769416689872742},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.5736359357833862},{"id":"https://openalex.org/keywords/gene-expression-profiling","display_name":"Gene expression profiling","score":0.49573811888694763},{"id":"https://openalex.org/keywords/cellular-differentiation","display_name":"Cellular differentiation","score":0.48935312032699585},{"id":"https://openalex.org/keywords/adipocyte","display_name":"Adipocyte","score":0.48280036449432373},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4385390877723694},{"id":"https://openalex.org/keywords/systems-biology","display_name":"Systems biology","score":0.43487587571144104},{"id":"https://openalex.org/keywords/cell-biology","display_name":"Cell biology","score":0.4112861156463623},{"id":"https://openalex.org/keywords/adipose-tissue","display_name":"Adipose tissue","score":0.39075982570648193},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.32972192764282227},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.17675915360450745}],"concepts":[{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.657394528388977},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6199362874031067},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.591615617275238},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5774120688438416},{"id":"https://openalex.org/C165864922","wikidata":"https://www.wikidata.org/wiki/Q411391","display_name":"Regulation of gene expression","level":3,"score":0.5769416689872742},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.5736359357833862},{"id":"https://openalex.org/C18431079","wikidata":"https://www.wikidata.org/wiki/Q1502169","display_name":"Gene expression profiling","level":4,"score":0.49573811888694763},{"id":"https://openalex.org/C148738053","wikidata":"https://www.wikidata.org/wiki/Q210861","display_name":"Cellular differentiation","level":3,"score":0.48935312032699585},{"id":"https://openalex.org/C2776175234","wikidata":"https://www.wikidata.org/wiki/Q357519","display_name":"Adipocyte","level":3,"score":0.48280036449432373},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4385390877723694},{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.43487587571144104},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.4112861156463623},{"id":"https://openalex.org/C171089720","wikidata":"https://www.wikidata.org/wiki/Q193583","display_name":"Adipose tissue","level":2,"score":0.39075982570648193},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.32972192764282227},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.17675915360450745}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001331","descriptor_name":"Automation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001331","descriptor_name":"Automation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001331","descriptor_name":"Automation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002454","descriptor_name":"Cell Differentiation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002454","descriptor_name":"Cell Differentiation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002454","descriptor_name":"Cell Differentiation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015964","descriptor_name":"Gene Expression Regulation, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015964","descriptor_name":"Gene Expression Regulation, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015964","descriptor_name":"Gene Expression Regulation, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017667","descriptor_name":"Adipocytes","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D017667","descriptor_name":"Adipocytes","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D017667","descriptor_name":"Adipocytes","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D017667","descriptor_name":"Adipocytes","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D017667","descriptor_name":"Adipocytes","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D017667","descriptor_name":"Adipocytes","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/s12859-018-2072-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2072-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2072-y","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:29745848","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29745848","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:e5764fa64c474080a1a81deea141d2af","is_oa":true,"landing_page_url":"https://doaj.org/article/e5764fa64c474080a1a81deea141d2af","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 19, Iss S4, Pp 49-59 (2018)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:4965289","is_oa":true,"landing_page_url":"http://europepmc.org/pmc/articles/PMC5998889","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:5998889","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5998889","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":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-018-2072-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2072-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2072-y","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G4798184324","display_name":"Proposal of interactive large scale Bayesian network estimation method and its application to biological data","funder_award_id":"15K00402","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G8302345808","display_name":"Rigorous analysis of epigenetic factors associating with the clinical course of diseases using discordant monozygotic twin pairs","funder_award_id":"16H03261","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"}],"funders":[{"id":"https://openalex.org/F4320334764","display_name":"Japan Society for the Promotion of Science","ror":"https://ror.org/00hhkn466"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2800947865.pdf","grobid_xml":"https://content.openalex.org/works/W2800947865.grobid-xml"},"referenced_works_count":56,"referenced_works":["https://openalex.org/W1505477995","https://openalex.org/W1593793857","https://openalex.org/W1755360231","https://openalex.org/W1801737117","https://openalex.org/W1933643226","https://openalex.org/W1964904043","https://openalex.org/W1970679073","https://openalex.org/W1972764318","https://openalex.org/W1976209715","https://openalex.org/W1986223165","https://openalex.org/W1987293552","https://openalex.org/W1990987722","https://openalex.org/W1992084001","https://openalex.org/W2002374079","https://openalex.org/W2006877085","https://openalex.org/W2007771322","https://openalex.org/W2012034410","https://openalex.org/W2012071760","https://openalex.org/W2015845481","https://openalex.org/W2020541351","https://openalex.org/W2042917321","https://openalex.org/W2059690875","https://openalex.org/W2061236999","https://openalex.org/W2061674320","https://openalex.org/W2063389953","https://openalex.org/W2076372398","https://openalex.org/W2078149659","https://openalex.org/W2080828514","https://openalex.org/W2085707114","https://openalex.org/W2094468530","https://openalex.org/W2108421561","https://openalex.org/W2109919485","https://openalex.org/W2115662646","https://openalex.org/W2116642156","https://openalex.org/W2117994680","https://openalex.org/W2118258530","https://openalex.org/W2118640842","https://openalex.org/W2121365413","https://openalex.org/W2128088446","https://openalex.org/W2135191607","https://openalex.org/W2136887407","https://openalex.org/W2136988691","https://openalex.org/W2142277116","https://openalex.org/W2142890842","https://openalex.org/W2146621718","https://openalex.org/W2151098983","https://openalex.org/W2159482845","https://openalex.org/W2163296115","https://openalex.org/W2165446840","https://openalex.org/W2169251996","https://openalex.org/W2597289420","https://openalex.org/W3099289621","https://openalex.org/W4294216483","https://openalex.org/W4313729847","https://openalex.org/W6681383220","https://openalex.org/W6724810722"],"related_works":["https://openalex.org/W2069695727","https://openalex.org/W1996185163","https://openalex.org/W2084813257","https://openalex.org/W2045929470","https://openalex.org/W2081127504","https://openalex.org/W2122223946","https://openalex.org/W4233500668","https://openalex.org/W1974145978","https://openalex.org/W1977867163","https://openalex.org/W2393426762"],"abstract_inverted_index":{"BACKGROUND:":[0],"Comprehensively":[1],"understanding":[2,254],"the":[3,10,25,55,58,66,87,108,114,128,132,142,160,178,187,192,212,217,227,238,261,264,280],"dynamics":[4],"of":[5,29,32,45,62,69,90,107,131,136,144,152,177,191,216,223,240,255,263,266,282],"biological":[6,256],"systems":[7,52,257],"is":[8,171],"among":[9],"biggest":[11],"current":[12],"challenges":[13],"in":[14,121],"biology":[15,283],"and":[16,51,60,98,105,149,182,219,258,271,284],"medicine.":[17,285],"To":[18],"acquire":[19],"this":[20],"understanding,":[21],"researchers":[22],"have":[23,37],"measured":[24],"time-series":[26,244],"expression":[27,80,96,189,246],"profiles":[28,97,190],"cell":[30,193],"lines":[31],"various":[33],"organisms.":[34],"Biological":[35],"technologies":[36],"also":[38],"drastically":[39],"improved,":[40],"providing":[41],"a":[42,99,220],"huge":[43],"amount":[44],"information":[46],"with":[47],"support":[48],"from":[49,77,94,117,196,243],"bioinformatics":[50],"biology.":[53],"However,":[54],"transitions":[56,239],"between":[57],"activation":[59,88],"inactivation":[61],"gene":[63,79,92,95,100,179,188,224,241,245],"regulations,":[64],"at":[65],"temporal":[67],"resolution":[68],"single":[70],"time":[71,202],"points,":[72],"are":[73,184,250],"difficult":[74],"to":[75,119,162,173,198,229,279],"extract":[76],"time-course":[78],"profiles.":[81,247],"RESULTS:":[82],"Our":[83,234],"proposed":[84,235,274],"method":[85,109,125,161,205,236,275],"reports":[86],"period":[89,143,222],"each":[91],"regulation":[93,180],"regulatory":[101],"network.":[102],"The":[103,124,273],"correctness":[104],"effectiveness":[106],"were":[110],"validated":[111],"by":[112],"analyzing":[113],"diauxic":[115],"shift":[116],"glucose":[118,137],"lactose":[120,153],"Escherichia":[122],"coli.":[123],"completely":[126],"detected":[127],"three":[129,209],"periods":[130,210],"shift;":[133],"1)":[134],"consumption":[135,151],"as":[138,154,269],"nutrient":[139,147,155],"source,":[140],"2)":[141],"seeking":[145],"another":[146],"source":[148],"3)":[150],"source.":[156],"We":[157],"then":[158],"applied":[159],"mouse":[163],"adipocyte":[164],"differentiation":[165,168,194,228],"data.":[166],"Cell":[167],"into":[169],"adipocytes":[170,230],"known":[172,214],"involve":[174],"two":[175,213],"waves":[176,215],"cascade,":[181,218],"sub-waves":[183],"predicted.":[185],"From":[186],"process":[195],"ES":[197],"adipose":[199],"cells":[200],"(62":[201],"points),":[203],"our":[204],"acquired":[206],"four":[207],"periods;":[208],"covering":[211],"final":[221],"regulations":[225,242],"when":[226],"was":[231],"completed.":[232],"CONCLUSIONS:":[233],"identifies":[237],"Dynamic":[248],"analyses":[249],"essential":[251],"for":[252,259],"deep":[253],"identifying":[260],"causes":[262],"onset":[265],"diseases":[267],"such":[268],"diabetes":[270],"osteoporosis.":[272],"can":[276],"greatly":[277],"contribute":[278],"progress":[281]},"counts_by_year":[],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}
