{"id":"https://openalex.org/W2049058758","doi":"https://doi.org/10.1186/1752-0509-1-39","title":"Modeling gene expression regulatory networks with the sparse vector autoregressive model","display_name":"Modeling gene expression regulatory networks with the sparse vector autoregressive model","publication_year":2007,"publication_date":"2007-08-30","ids":{"openalex":"https://openalex.org/W2049058758","doi":"https://doi.org/10.1186/1752-0509-1-39","mag":"2049058758","pmid":"https://pubmed.ncbi.nlm.nih.gov/17761000"},"language":"en","primary_location":{"id":"doi:10.1186/1752-0509-1-39","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1752-0509-1-39","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/1752-0509-1-39","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":null,"license_id":null,"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/counter/pdf/10.1186/1752-0509-1-39","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5067767544","display_name":"Andr\u00e9 Fujita","orcid":"https://orcid.org/0000-0002-7756-7051"},"institutions":[{"id":"https://openalex.org/I4210092357","display_name":"Institute of Mathematics and Computer Science","ror":"https://ror.org/00fy4at53","country_code":"MD","type":"facility","lineage":["https://openalex.org/I112090838","https://openalex.org/I4210092357"]},{"id":"https://openalex.org/I17974374","display_name":"Universidade de S\u00e3o Paulo","ror":"https://ror.org/036rp1748","country_code":"BR","type":"education","lineage":["https://openalex.org/I17974374"]}],"countries":["BR","MD"],"is_corresponding":true,"raw_author_name":"Andr\u00e9 Fujita","raw_affiliation_strings":["Institute of Mathematics and Statistics, University of S\u00e3o Paulo, Rua do Mat\u00e3o, 1010 - S\u00e3o Paulo, 05508-090, SP, Brazil. fujita@ime.usp.br","Institute of Mathematics and Statistics, University of S\u00e3o Paulo, Rua do Mat\u00e3o, 1010 \u2013 S\u00e3o Paulo, 05508-090, SP, Brazil"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Mathematics and Statistics, University of S\u00e3o Paulo, Rua do Mat\u00e3o, 1010 - S\u00e3o Paulo, 05508-090, SP, Brazil. fujita@ime.usp.br","institution_ids":["https://openalex.org/I4210092357"]},{"raw_affiliation_string":"Institute of Mathematics and Statistics, University of S\u00e3o Paulo, Rua do Mat\u00e3o, 1010 \u2013 S\u00e3o Paulo, 05508-090, SP, Brazil","institution_ids":["https://openalex.org/I17974374"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029606860","display_name":"Jo\u00e3o Ricardo Sato","orcid":"https://orcid.org/0000-0002-7503-9781"},"institutions":[{"id":"https://openalex.org/I4210153843","display_name":"Instituto do Sono","ror":"https://ror.org/053n8e896","country_code":"BR","type":"nonprofit","lineage":["https://openalex.org/I4210153843"]},{"id":"https://openalex.org/I17974374","display_name":"Universidade de S\u00e3o Paulo","ror":"https://ror.org/036rp1748","country_code":"BR","type":"education","lineage":["https://openalex.org/I17974374"]}],"countries":["BR"],"is_corresponding":false,"raw_author_name":"Jo\u00e3o R Sato","raw_affiliation_strings":["Institute of Mathematics and Statistics, University of So Paulo, Rua do Mato, 1010 -So Paulo, 05508-090, SP, Brazil,","Institute of Mathematics and Statistics, University of S\u00e3o Paulo, Rua do Mat\u00e3o, 1010 \u2013 S\u00e3o Paulo, 05508-090, SP, Brazil"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Mathematics and Statistics, University of So Paulo, Rua do Mato, 1010 -So Paulo, 05508-090, SP, Brazil,","institution_ids":["https://openalex.org/I4210153843"]},{"raw_affiliation_string":"Institute of Mathematics and Statistics, University of S\u00e3o Paulo, Rua do Mat\u00e3o, 1010 \u2013 S\u00e3o Paulo, 05508-090, SP, Brazil","institution_ids":["https://openalex.org/I17974374"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083415861","display_name":"Miguel Garay-Malpartida","orcid":"https://orcid.org/0000-0002-1164-2055"},"institutions":[{"id":"https://openalex.org/I17974374","display_name":"Universidade de S\u00e3o Paulo","ror":"https://ror.org/036rp1748","country_code":"BR","type":"education","lineage":["https://openalex.org/I17974374"]},{"id":"https://openalex.org/I4210153843","display_name":"Instituto do Sono","ror":"https://ror.org/053n8e896","country_code":"BR","type":"nonprofit","lineage":["https://openalex.org/I4210153843"]}],"countries":["BR"],"is_corresponding":false,"raw_author_name":"Humberto M Garay-Malpartida","raw_affiliation_strings":["Chemistry Institute, University of So Paulo, Av. Lineu Prestes, 748 -So Paulo, 05513-970, SP, Brazil,","School of Arts, Science and Humanities, University of So Paulo, Av. Arlindo Bettio, 1000 -So Paulo, 03828-000, SP, Brazil and","Chemistry Institute, University of S\u00e3o Paulo, Av. Lineu Prestes, 748 \u2013 S\u00e3o Paulo, 05513-970, SP, Brazil"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Chemistry Institute, University of So Paulo, Av. Lineu Prestes, 748 -So Paulo, 05513-970, SP, Brazil,","institution_ids":["https://openalex.org/I4210153843"]},{"raw_affiliation_string":"School of Arts, Science and Humanities, University of So Paulo, Av. Arlindo Bettio, 1000 -So Paulo, 03828-000, SP, Brazil and","institution_ids":["https://openalex.org/I4210153843"]},{"raw_affiliation_string":"Chemistry Institute, University of S\u00e3o Paulo, Av. Lineu Prestes, 748 \u2013 S\u00e3o Paulo, 05513-970, SP, Brazil","institution_ids":["https://openalex.org/I17974374"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078146127","display_name":"Rui Yamaguchi","orcid":"https://orcid.org/0000-0003-1224-227X"},"institutions":[{"id":"https://openalex.org/I161296585","display_name":"Tokyo University of Science","ror":"https://ror.org/05sj3n476","country_code":"JP","type":"education","lineage":["https://openalex.org/I161296585"]},{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Rui Yamaguchi","raw_affiliation_strings":["Human Genome Center, Institute of Medical Science, University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo, 108-8639, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Human Genome Center, Institute of Medical Science, University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo, 108-8639, Japan","institution_ids":["https://openalex.org/I74801974","https://openalex.org/I161296585"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088167618","display_name":"Satoru Miyano","orcid":"https://orcid.org/0000-0002-1753-6616"},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]},{"id":"https://openalex.org/I161296585","display_name":"Tokyo University of Science","ror":"https://ror.org/05sj3n476","country_code":"JP","type":"education","lineage":["https://openalex.org/I161296585"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Satoru Miyano","raw_affiliation_strings":["Human Genome Center, Institute of Medical Science, University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo, 108-8639, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Human Genome Center, Institute of Medical Science, University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo, 108-8639, Japan","institution_ids":["https://openalex.org/I74801974","https://openalex.org/I161296585"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036266784","display_name":"Mari Cleide Sogayar","orcid":"https://orcid.org/0000-0003-4805-4609"},"institutions":[{"id":"https://openalex.org/I4210153843","display_name":"Instituto do Sono","ror":"https://ror.org/053n8e896","country_code":"BR","type":"nonprofit","lineage":["https://openalex.org/I4210153843"]},{"id":"https://openalex.org/I17974374","display_name":"Universidade de S\u00e3o Paulo","ror":"https://ror.org/036rp1748","country_code":"BR","type":"education","lineage":["https://openalex.org/I17974374"]}],"countries":["BR"],"is_corresponding":false,"raw_author_name":"Mari C Sogayar","raw_affiliation_strings":["Chemistry Institute, University of So Paulo, Av. Lineu Prestes, 748 -So Paulo, 05513-970, SP, Brazil,","Chemistry Institute, University of S\u00e3o Paulo, Av. Lineu Prestes, 748 \u2013 S\u00e3o Paulo, 05513-970, SP, Brazil"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Chemistry Institute, University of So Paulo, Av. Lineu Prestes, 748 -So Paulo, 05513-970, SP, Brazil,","institution_ids":["https://openalex.org/I4210153843"]},{"raw_affiliation_string":"Chemistry Institute, University of S\u00e3o Paulo, Av. Lineu Prestes, 748 \u2013 S\u00e3o Paulo, 05513-970, SP, Brazil","institution_ids":["https://openalex.org/I17974374"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5103212438","display_name":"Carlos Eduardo Ferreira","orcid":"https://orcid.org/0000-0003-4804-5788"},"institutions":[{"id":"https://openalex.org/I4210153843","display_name":"Instituto do Sono","ror":"https://ror.org/053n8e896","country_code":"BR","type":"nonprofit","lineage":["https://openalex.org/I4210153843"]},{"id":"https://openalex.org/I17974374","display_name":"Universidade de S\u00e3o Paulo","ror":"https://ror.org/036rp1748","country_code":"BR","type":"education","lineage":["https://openalex.org/I17974374"]}],"countries":["BR"],"is_corresponding":false,"raw_author_name":"Carlos E Ferreira","raw_affiliation_strings":["Institute of Mathematics and Statistics, University of So Paulo, Rua do Mato, 1010 -So Paulo, 05508-090, SP, Brazil,","Institute of Mathematics and Statistics, University of S\u00e3o Paulo, Rua do Mat\u00e3o, 1010 \u2013 S\u00e3o Paulo, 05508-090, SP, Brazil"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Mathematics and Statistics, University of So Paulo, Rua do Mato, 1010 -So Paulo, 05508-090, SP, Brazil,","institution_ids":["https://openalex.org/I4210153843"]},{"raw_affiliation_string":"Institute of Mathematics and Statistics, University of S\u00e3o Paulo, Rua do Mat\u00e3o, 1010 \u2013 S\u00e3o Paulo, 05508-090, SP, Brazil","institution_ids":["https://openalex.org/I17974374"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5067767544"],"corresponding_institution_ids":["https://openalex.org/I17974374","https://openalex.org/I4210092357"],"apc_list":null,"apc_paid":null,"fwci":3.6323,"has_fulltext":true,"cited_by_count":167,"citation_normalized_percentile":{"value":0.93592438,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":97,"max":100},"biblio":{"volume":"1","issue":"1","first_page":"39","last_page":"39"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.8255000114440918,"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/T10885","display_name":"Gene expression and cancer classification","score":0.8255000114440918,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.12409999966621399,"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":0.008899999782443047,"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-regulatory-network","display_name":"Gene regulatory network","score":0.748981237411499},{"id":"https://openalex.org/keywords/autoregressive-model","display_name":"Autoregressive model","score":0.7011240720748901},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6126338243484497},{"id":"https://openalex.org/keywords/false-positive-paradox","display_name":"False positive paradox","score":0.5682241916656494},{"id":"https://openalex.org/keywords/cluster-analysis","display_name":"Cluster analysis","score":0.5121734142303467},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.49005210399627686},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4810355305671692},{"id":"https://openalex.org/keywords/microarray-analysis-techniques","display_name":"Microarray analysis techniques","score":0.477870374917984},{"id":"https://openalex.org/keywords/systems-biology","display_name":"Systems biology","score":0.4569426476955414},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3546578884124756},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3325720429420471},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.29434508085250854},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.20553049445152283},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.20380613207817078},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.13332989811897278},{"id":"https://openalex.org/keywords/econometrics","display_name":"Econometrics","score":0.13046878576278687}],"concepts":[{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.748981237411499},{"id":"https://openalex.org/C159877910","wikidata":"https://www.wikidata.org/wiki/Q2202883","display_name":"Autoregressive model","level":2,"score":0.7011240720748901},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6126338243484497},{"id":"https://openalex.org/C64869954","wikidata":"https://www.wikidata.org/wiki/Q1859747","display_name":"False positive paradox","level":2,"score":0.5682241916656494},{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.5121734142303467},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.49005210399627686},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4810355305671692},{"id":"https://openalex.org/C8415881","wikidata":"https://www.wikidata.org/wiki/Q6839217","display_name":"Microarray analysis techniques","level":4,"score":0.477870374917984},{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.4569426476955414},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3546578884124756},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3325720429420471},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.29434508085250854},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.20553049445152283},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.20380613207817078},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.13332989811897278},{"id":"https://openalex.org/C149782125","wikidata":"https://www.wikidata.org/wiki/Q160039","display_name":"Econometrics","level":1,"score":0.13046878576278687}],"mesh":[{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005189","descriptor_name":"False Positive Reactions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005189","descriptor_name":"False Positive Reactions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005189","descriptor_name":"False Positive Reactions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005189","descriptor_name":"False Positive Reactions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006367","descriptor_name":"HeLa Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006367","descriptor_name":"HeLa Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006367","descriptor_name":"HeLa Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006367","descriptor_name":"HeLa Cells","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":"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":"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":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D020869","descriptor_name":"Gene Expression Profiling","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},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":5,"locations":[{"id":"doi:10.1186/1752-0509-1-39","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1752-0509-1-39","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/1752-0509-1-39","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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Systems Biology","raw_type":"journal-article"},{"id":"pmid:17761000","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/17761000","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:www.producao.usp.br:BDPI/33130","is_oa":true,"landing_page_url":"http://www.producao.usp.br/handle/BDPI/33130","pdf_url":null,"source":{"id":"https://openalex.org/S4306402433","display_name":"Portuguese National Funding Agency for Science, Research and Technology (RCAAP Project by FCT)","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"reponame:Reposit\u00f3rio Institucional da USP","raw_type":"publishedVersion"},{"id":"pmh:oai:www.producao.usp.br:BDPI/46892","is_oa":false,"landing_page_url":"http://doi.org/10.1186/1752-0509-1-39","pdf_url":null,"source":{"id":"https://openalex.org/S4306402433","display_name":"Portuguese National Funding Agency for Science, Research and Technology (RCAAP Project by FCT)","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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"reponame:Reposit\u00f3rio Institucional da USP","raw_type":"publishedVersion"},{"id":"pmh:oai:europepmc.org:1171231","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2048982","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:10.1186/1752-0509-1-39","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1752-0509-1-39","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/1752-0509-1-39","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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Systems Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320320997","display_name":"Funda\u00e7\u00e3o de Amparo \u00e0 Pesquisa do Estado de S\u00e3o Paulo","ror":"https://ror.org/02ddkpn78"},{"id":"https://openalex.org/F4320321091","display_name":"Coordena\u00e7\u00e3o de Aperfei\u00e7oamento de Pessoal de N\u00edvel Superior","ror":"https://ror.org/00x0ma614"},{"id":"https://openalex.org/F4320322025","display_name":"Conselho Nacional de Desenvolvimento Cient\u00edfico e Tecnol\u00f3gico","ror":"https://ror.org/03swz6y49"},{"id":"https://openalex.org/F4320322716","display_name":"Japan International Cooperation Agency","ror":"https://ror.org/022es3t03"},{"id":"https://openalex.org/F4320322904","display_name":"Financiadora de Estudos e Projetos","ror":"https://ror.org/030w99567"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2049058758.pdf","grobid_xml":"https://content.openalex.org/works/W2049058758.grobid-xml"},"referenced_works_count":68,"referenced_works":["https://openalex.org/W1554944419","https://openalex.org/W1596801838","https://openalex.org/W1756428283","https://openalex.org/W1816956670","https://openalex.org/W1889152575","https://openalex.org/W1893505266","https://openalex.org/W1920846434","https://openalex.org/W1974540575","https://openalex.org/W1981547652","https://openalex.org/W1986040959","https://openalex.org/W1994079658","https://openalex.org/W1998376035","https://openalex.org/W1998770945","https://openalex.org/W2000359198","https://openalex.org/W2003594637","https://openalex.org/W2003982318","https://openalex.org/W2008620264","https://openalex.org/W2011059713","https://openalex.org/W2014360396","https://openalex.org/W2014725748","https://openalex.org/W2023643761","https://openalex.org/W2025803032","https://openalex.org/W2033791403","https://openalex.org/W2043771676","https://openalex.org/W2044525257","https://openalex.org/W2065769502","https://openalex.org/W2069408483","https://openalex.org/W2069531817","https://openalex.org/W2070094080","https://openalex.org/W2074682976","https://openalex.org/W2076372398","https://openalex.org/W2088323624","https://openalex.org/W2090554117","https://openalex.org/W2091879895","https://openalex.org/W2097961822","https://openalex.org/W2099235429","https://openalex.org/W2103612071","https://openalex.org/W2105712639","https://openalex.org/W2110065044","https://openalex.org/W2114445658","https://openalex.org/W2116635868","https://openalex.org/W2117994680","https://openalex.org/W2118467699","https://openalex.org/W2120034091","https://openalex.org/W2125631472","https://openalex.org/W2135046866","https://openalex.org/W2140176439","https://openalex.org/W2142384246","https://openalex.org/W2144885342","https://openalex.org/W2148460690","https://openalex.org/W2149414429","https://openalex.org/W2156803951","https://openalex.org/W2156909104","https://openalex.org/W2159877036","https://openalex.org/W2160637580","https://openalex.org/W2167190345","https://openalex.org/W2168399023","https://openalex.org/W2178225550","https://openalex.org/W2324992364","https://openalex.org/W2610714868","https://openalex.org/W2783142245","https://openalex.org/W3103071483","https://openalex.org/W3103786587","https://openalex.org/W4234698323","https://openalex.org/W4238943743","https://openalex.org/W4241523755","https://openalex.org/W4297440291","https://openalex.org/W4312512934"],"related_works":["https://openalex.org/W2949927938","https://openalex.org/W2029387041","https://openalex.org/W2135896045","https://openalex.org/W1982897783","https://openalex.org/W2032799661","https://openalex.org/W2884256268","https://openalex.org/W2131025197","https://openalex.org/W2799842390","https://openalex.org/W2171763327","https://openalex.org/W2154615478"],"abstract_inverted_index":{"BACKGROUND:":[0],"To":[1],"understand":[2,26],"the":[3,14,36,65,121,132,147,162,187,208,215,238,286,293,320],"molecular":[4,28],"mechanisms":[5],"underlying":[6],"important":[7],"biological":[8],"processes,":[9],"a":[10,78,86,137,141,153,228,308,315],"detailed":[11],"description":[12],"of":[13,81,89,120,210,217,288,295],"gene":[15,40,169,174,256,278,331],"products":[16],"networks":[17,42,76,171,280],"involved":[18],"is":[19,98,104,135,212,221,274,290],"required.":[20],"In":[21,117,311],"order":[22],"to":[23,38,52,59,64,73,94,106,155,167,190,223,233,251,262,276,300,318],"define":[24],"and":[25],"such":[27],"networks,":[29,193],"some":[30],"statistical":[31,108,316],"methods":[32,111,235],"are":[33,123,241],"proposed":[34,271],"in":[35,62,101,206,237,281,284],"literature":[37],"estimate":[39,168],"regulatory":[41,170,192,279,332],"from":[43,77,85,178],"time-series":[44,179],"microarray":[45,90,180],"data.":[46],"However,":[47],"several":[48],"problems":[49],"still":[50],"need":[51,58],"be":[53,60],"overcome.":[54],"Firstly,":[55],"information":[56],"flow":[57],"inferred,":[61],"addition":[63],"correlation":[66],"between":[67],"genes.":[68,218],"Secondly,":[69],"we":[70,145,194,259,313],"usually":[71],"try":[72],"identify":[74,263],"large":[75,79,114],"number":[80,88,209,216,287,294],"genes":[82],"(parameters)":[83],"originating":[84],"smaller":[87,213],"experiments":[91],"(samples).":[92],"Due":[93],"this":[95],"situation,":[96],"which":[97,207,240,285,324],"rather":[99],"frequent":[100,282],"Bioinformatics,":[102],"it":[103,220,298],"difficult":[105],"perform":[107],"tests":[109],"using":[110,128,329],"that":[112,196],"model":[113,151,166,277],"gene-gene":[115,138],"networks.":[116],"addition,":[118,312],"most":[119],"models":[122],"based":[124,172,242],"on":[125,173,243],"dimension":[126],"reduction":[127],"clustering":[129],"techniques,":[130],"therefore,":[131],"resulting":[133],"network":[134,139,333],"not":[136,326],"but":[140],"module-module":[142],"network.":[143],"Here,":[144],"present":[146,314],"Sparse":[148,163],"Vector":[149,164],"Autoregressive":[150,165],"as":[152],"solution":[154],"these":[156],"problems.":[157],"RESULTS:":[158],"We":[159],"have":[160],"applied":[161],"expression":[175,257],"profiles":[176],"obtained":[177],"experiments.":[181],"Through":[182],"extensive":[183],"simulations,":[184],"by":[185],"applying":[186,249],"SVAR":[188,197,250,272],"method":[189,273],"artificial":[191],"show":[195],"can":[198],"infer":[199,302],"true":[200],"positive":[201],"edges":[202],"even":[203],"under":[204],"conditions":[205],"samples":[211,289],"than":[214,292],"Moreover,":[219],"possible":[222,299,328],"control":[224,319],"for":[225],"false":[226,321],"positives,":[227],"significant":[229],"advantage":[230],"when":[231],"compared":[232],"other":[234,330],"described":[236],"literature,":[239],"ranks":[244],"or":[245],"score":[246],"functions.":[247],"By":[248],"actual":[252],"HeLa":[253],"cell":[254],"cycle":[255],"data,":[258],"were":[260],"able":[261,275],"well":[264],"known":[265],"transcription":[266],"factor":[267],"targets.":[268],"CONCLUSION:":[269],"The":[270],"situations":[283],"lower":[291],"genes,":[296],"making":[297],"naturally":[301],"partial":[303],"Granger":[304],"causalities":[305],"without":[306],"any":[307],"priori":[309],"information.":[310],"test":[317],"discovery":[322],"rate,":[323],"was":[325],"previously":[327],"models.":[334]},"counts_by_year":[{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":7},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":20},{"year":2020,"cited_by_count":7},{"year":2019,"cited_by_count":6},{"year":2018,"cited_by_count":6},{"year":2017,"cited_by_count":13},{"year":2016,"cited_by_count":14},{"year":2015,"cited_by_count":12},{"year":2014,"cited_by_count":14},{"year":2013,"cited_by_count":13},{"year":2012,"cited_by_count":8}],"updated_date":"2026-04-29T09:16:38.111599","created_date":"2025-10-10T00:00:00"}
