{"id":"https://openalex.org/W2109919485","doi":"https://doi.org/10.1142/s0219720015430027","title":"Detecting shifts in gene regulatory networks during time-course experiments at single-time-point temporal resolution","display_name":"Detecting shifts in gene regulatory networks during time-course experiments at single-time-point temporal resolution","publication_year":2015,"publication_date":"2015-09-30","ids":{"openalex":"https://openalex.org/W2109919485","doi":"https://doi.org/10.1142/s0219720015430027","mag":"2109919485","pmid":"https://pubmed.ncbi.nlm.nih.gov/26508425"},"language":"en","primary_location":{"id":"doi:10.1142/s0219720015430027","is_oa":true,"landing_page_url":"https://doi.org/10.1142/s0219720015430027","pdf_url":"https://www.worldscientific.com/doi/pdf/10.1142/S0219720015430027","source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"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 Bioinformatics and Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://www.worldscientific.com/doi/pdf/10.1142/S0219720015430027","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5110041664","display_name":"Yoichi Takenaka","orcid":null},"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":"Yoichi Takenaka","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":"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":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I98285908"],"apc_list":null,"apc_paid":null,"fwci":0.4434,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.65418452,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":"13","issue":"05","first_page":"1543002","last_page":"1543002"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9998999834060669,"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":0.9998999834060669,"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":0.9958999752998352,"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":0.994700014591217,"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/time-point","display_name":"Time point","score":0.6461898684501648},{"id":"https://openalex.org/keywords/systems-biology","display_name":"Systems biology","score":0.6417868137359619},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.6141958236694336},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5553605556488037},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5329982042312622},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4826850891113281},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.47304099798202515},{"id":"https://openalex.org/keywords/regulation-of-gene-expression","display_name":"Regulation of gene expression","score":0.471851110458374},{"id":"https://openalex.org/keywords/temporal-resolution","display_name":"Temporal resolution","score":0.4571719765663147},{"id":"https://openalex.org/keywords/point","display_name":"Point (geometry)","score":0.4372614026069641},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.39514467120170593},{"id":"https://openalex.org/keywords/biological-system","display_name":"Biological system","score":0.37831711769104004},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.37471720576286316},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.27201133966445923},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.2618401050567627},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.11605647206306458}],"concepts":[{"id":"https://openalex.org/C2779466056","wikidata":"https://www.wikidata.org/wiki/Q107630651","display_name":"Time point","level":2,"score":0.6461898684501648},{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.6417868137359619},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.6141958236694336},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5553605556488037},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5329982042312622},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4826850891113281},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.47304099798202515},{"id":"https://openalex.org/C165864922","wikidata":"https://www.wikidata.org/wiki/Q411391","display_name":"Regulation of gene expression","level":3,"score":0.471851110458374},{"id":"https://openalex.org/C119666444","wikidata":"https://www.wikidata.org/wiki/Q5977280","display_name":"Temporal resolution","level":2,"score":0.4571719765663147},{"id":"https://openalex.org/C28719098","wikidata":"https://www.wikidata.org/wiki/Q44946","display_name":"Point (geometry)","level":2,"score":0.4372614026069641},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.39514467120170593},{"id":"https://openalex.org/C186060115","wikidata":"https://www.wikidata.org/wiki/Q30336093","display_name":"Biological system","level":1,"score":0.37831711769104004},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.37471720576286316},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.27201133966445923},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.2618401050567627},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.11605647206306458},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"score":0.0}],"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":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"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":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000254","qualifier_name":"growth & development","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000254","qualifier_name":"growth & development","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000254","qualifier_name":"growth & development","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D005947","descriptor_name":"Glucose","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D005947","descriptor_name":"Glucose","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D005947","descriptor_name":"Glucose","qualifier_ui":"Q000378","qualifier_name":"metabolism","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":"D007785","descriptor_name":"Lactose","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D007785","descriptor_name":"Lactose","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D007785","descriptor_name":"Lactose","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","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":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","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},{"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":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":2,"locations":[{"id":"doi:10.1142/s0219720015430027","is_oa":true,"landing_page_url":"https://doi.org/10.1142/s0219720015430027","pdf_url":"https://www.worldscientific.com/doi/pdf/10.1142/S0219720015430027","source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"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 Bioinformatics and Computational Biology","raw_type":"journal-article"},{"id":"pmid:26508425","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26508425","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 bioinformatics and computational biology","raw_type":null}],"best_oa_location":{"id":"doi:10.1142/s0219720015430027","is_oa":true,"landing_page_url":"https://doi.org/10.1142/s0219720015430027","pdf_url":"https://www.worldscientific.com/doi/pdf/10.1142/S0219720015430027","source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"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 Bioinformatics and Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3449772426","display_name":"Accuracy improvement of allele and gene expression analyses by next generation sequencer","funder_award_id":"22680023","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G3481099601","display_name":null,"funder_award_id":"hp150232","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G4238939857","display_name":"Development of Systematic Analysis Method of Gene Network for Adipocyte Transdifferentiation","funder_award_id":"26280106","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"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/G5242242435","display_name":"Faster genome mapping method using 4-ary Perfect Linear Code","funder_award_id":"24650155","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G6755847449","display_name":"A method for gene regulatory network estimation based on high-throughput sequencer data","funder_award_id":"24700294","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/W2109919485.pdf","grobid_xml":"https://content.openalex.org/works/W2109919485.grobid-xml"},"referenced_works_count":32,"referenced_works":["https://openalex.org/W1896341954","https://openalex.org/W1972764318","https://openalex.org/W1976209715","https://openalex.org/W1986223165","https://openalex.org/W1987293552","https://openalex.org/W2006877085","https://openalex.org/W2007771322","https://openalex.org/W2012034410","https://openalex.org/W2015845481","https://openalex.org/W2020294948","https://openalex.org/W2020541351","https://openalex.org/W2040232066","https://openalex.org/W2042917321","https://openalex.org/W2061674320","https://openalex.org/W2076372398","https://openalex.org/W2078149659","https://openalex.org/W2094468530","https://openalex.org/W2108421561","https://openalex.org/W2117994680","https://openalex.org/W2118640842","https://openalex.org/W2122342005","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/W2159482845","https://openalex.org/W2163296115","https://openalex.org/W2597289420","https://openalex.org/W3099289621","https://openalex.org/W4294216483"],"related_works":["https://openalex.org/W2949927938","https://openalex.org/W2029387041","https://openalex.org/W2135896045","https://openalex.org/W2010571965","https://openalex.org/W2032799661","https://openalex.org/W2884256268","https://openalex.org/W2002709996","https://openalex.org/W2131025197","https://openalex.org/W3128451840","https://openalex.org/W2799842390"],"abstract_inverted_index":{"Comprehensively":[0],"understanding":[1],"the":[2,10,93,105,115,131,136,155,159,163,170,174,177,180,193,201,211,224,228],"dynamics":[3],"of":[4,9,23,108,130,165,176,203,230],"biological":[5,17,221],"systems":[6,32],"is":[7,102,133],"one":[8],"greatest":[11],"challenges":[12],"in":[13,117,143,237],"biology.":[14],"Vastly":[15],"improved":[16],"technologies":[18],"have":[19,37],"provided":[20],"vast":[21],"amounts":[22],"information":[24,106,109],"that":[25,63,91],"must":[26],"be":[27],"understood":[28],"by":[29,41],"bioinformatics":[30],"and":[31,169,184,196],"biology":[33],"researchers.":[34],"Gene":[35,146],"regulations":[36,61,95],"been":[38],"frequently":[39],"modeled":[40],"ordinary":[42],"differential":[43],"equations":[44],"or":[45],"graphical":[46],"models":[47,65],"based":[48,103,209],"on":[49,104,135,210],"time-course":[50,69,123,249],"gene":[51,60,94,118,204,231,239],"expression":[52,240],"profiles.":[53],"The":[54,100,112,128,207],"state-of-the-art":[55],"computational":[56],"approaches":[57,73],"for":[58,218],"analyzing":[59,219],"assume":[62],"their":[64],"are":[66],"same":[67],"throughout":[68],"experiments.":[70,250],"However,":[71],"these":[72,191],"cannot":[74],"easily":[75],"analyze":[76],"transient":[77],"changes":[78],"at":[79,96,151,161,233],"a":[80,89,215,238],"time":[81,98,153,160,202,235],"point,":[82],"such":[83],"as":[84],"diauxic":[85,137],"shift.":[86],"We":[87],"propose":[88],"score":[90,101,195,213,225],"analyzes":[92],"each":[97,234],"point.":[99],"gains":[107],"criterion":[110],"values.":[111],"method":[113,132,197,208],"detects":[114],"shifts":[116,148],"regulatory":[119],"networks":[120],"(GRNs)":[121],"during":[122],"experiments":[124],"with":[125],"single-time-point":[126],"resolution.":[127],"effectiveness":[129],"evaluated":[134],"shift":[138],"from":[139,248],"glucose":[140],"to":[141,158,173,190],"lactose":[142],"Escherichia":[144],"coli.":[145],"regulation":[147,205,232],"were":[149],"detected":[150],"two":[152],"points:":[154],"first":[156],"corresponding":[157,172],"which":[162],"growth":[164],"E.":[166],"coli":[167],"ceased":[168],"second":[171],"end":[175],"experiment,":[178],"when":[179],"nutrient":[181],"sources":[182],"(glucose":[183],"lactose)":[185],"had":[186],"become":[187],"exhausted.":[188],"According":[189],"results,":[192],"proposed":[194,212],"can":[198,243],"appropriately":[199],"detect":[200],"shifts.":[206],"provides":[214],"new":[216],"tool":[217],"dynamic":[220],"systems.":[222],"Because":[223],"value":[226],"indicates":[227],"strength":[229],"point":[236],"profile,":[241],"it":[242],"potentially":[244],"infer":[245],"hidden":[246],"GRNs":[247]},"counts_by_year":[{"year":2018,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":1}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}