{"id":"https://openalex.org/W2026928641","doi":"https://doi.org/10.1142/s0219720010004860","title":"IDENTIFICATION OF GRANGER CAUSALITY BETWEEN GENE SETS","display_name":"IDENTIFICATION OF GRANGER CAUSALITY BETWEEN GENE SETS","publication_year":2010,"publication_date":"2010-03-31","ids":{"openalex":"https://openalex.org/W2026928641","doi":"https://doi.org/10.1142/s0219720010004860","mag":"2026928641"},"language":"en","primary_location":{"id":"doi:10.1142/s0219720010004860","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720010004860","pdf_url":null,"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":null,"license_id":null,"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"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"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/I4210129730","display_name":"RIKEN Center for Computational Science","ror":"https://ror.org/03r519674","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4210110652","https://openalex.org/I4210129730"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"ANDR\u00c9 FUJITA","raw_affiliation_strings":["Computational Science Research Program, RIKEN, 2-1, Hirosawa, Wako, Saitama, 351-0198, Japan"],"affiliations":[{"raw_affiliation_string":"Computational Science Research Program, RIKEN, 2-1, Hirosawa, Wako, Saitama, 351-0198, Japan","institution_ids":["https://openalex.org/I4210129730"]}]},{"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/I71715416","display_name":"Universidade Federal do ABC","ror":"https://ror.org/028kg9j04","country_code":"BR","type":"education","lineage":["https://openalex.org/I71715416"]}],"countries":["BR"],"is_corresponding":false,"raw_author_name":"JO\u00c3O RICARDO SATO","raw_affiliation_strings":["Center of Mathematics, Computation and Cognition, Universidade Federal do ABC, Rua Santa Ad\u00e9lia, 166 \u2013 Santo Andr\u00e9, Brazil"],"affiliations":[{"raw_affiliation_string":"Center of Mathematics, Computation and Cognition, Universidade Federal do ABC, Rua Santa Ad\u00e9lia, 166 \u2013 Santo Andr\u00e9, Brazil","institution_ids":["https://openalex.org/I71715416"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101893270","display_name":"Kaname Kojima","orcid":"https://orcid.org/0000-0001-5713-2483"},"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":"KANAME KOJIMA","raw_affiliation_strings":["Human Genome Center, Institute of Medical Science, University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo, 108-8639, Japan"],"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/A5006395053","display_name":"Luciana Rodrigues Gomes","orcid":null},"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"]}],"countries":["BR"],"is_corresponding":false,"raw_author_name":"LUCIANA RODRIGUES GOMES","raw_affiliation_strings":["Chemistry Institute, University of S\u00e3o Paulo, Av. Lineu Prestes, 748 \u2013 S\u00e3o Paulo, 05508-900, Brazil"],"affiliations":[{"raw_affiliation_string":"Chemistry Institute, University of S\u00e3o Paulo, Av. Lineu Prestes, 748 \u2013 S\u00e3o Paulo, 05508-900, Brazil","institution_ids":["https://openalex.org/I17974374"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025220924","display_name":"Masao Nagasaki","orcid":"https://orcid.org/0000-0002-4292-8785"},"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":"MASAO NAGASAKI","raw_affiliation_strings":["Human Genome Center, Institute of Medical Science, University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo, 108-8639, Japan"],"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/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 CLEIDE SOGAYAR","raw_affiliation_strings":["Chemistry Institute, University of S\u00e3o Paulo, Av. Lineu Prestes, 748 \u2013 S\u00e3o Paulo, 05508-900, Brazil"],"affiliations":[{"raw_affiliation_string":"Chemistry Institute, University of S\u00e3o Paulo, Av. Lineu Prestes, 748 \u2013 S\u00e3o Paulo, 05508-900, Brazil","institution_ids":["https://openalex.org/I17974374"]}]},{"author_position":"last","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"],"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"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5067767544"],"corresponding_institution_ids":["https://openalex.org/I4210129730"],"apc_list":null,"apc_paid":null,"fwci":1.1895,"has_fulltext":false,"cited_by_count":18,"citation_normalized_percentile":{"value":0.77021533,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"08","issue":"04","first_page":"679","last_page":"701"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9968000054359436,"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":0.9968000054359436,"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":0.9968000054359436,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.9939000010490417,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/granger-causality","display_name":"Granger causality","score":0.9471802711486816},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.5072633624076843},{"id":"https://openalex.org/keywords/causality","display_name":"Causality (physics)","score":0.4902411103248596},{"id":"https://openalex.org/keywords/autoregressive-model","display_name":"Autoregressive model","score":0.4607333838939667},{"id":"https://openalex.org/keywords/econometrics","display_name":"Econometrics","score":0.4523157477378845},{"id":"https://openalex.org/keywords/multivariate-statistics","display_name":"Multivariate statistics","score":0.44129228591918945},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.38951072096824646},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.31922584772109985},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.2325846254825592},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.06665557622909546}],"concepts":[{"id":"https://openalex.org/C129824826","wikidata":"https://www.wikidata.org/wiki/Q2630107","display_name":"Granger causality","level":2,"score":0.9471802711486816},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.5072633624076843},{"id":"https://openalex.org/C64357122","wikidata":"https://www.wikidata.org/wiki/Q1149766","display_name":"Causality (physics)","level":2,"score":0.4902411103248596},{"id":"https://openalex.org/C159877910","wikidata":"https://www.wikidata.org/wiki/Q2202883","display_name":"Autoregressive model","level":2,"score":0.4607333838939667},{"id":"https://openalex.org/C149782125","wikidata":"https://www.wikidata.org/wiki/Q160039","display_name":"Econometrics","level":1,"score":0.4523157477378845},{"id":"https://openalex.org/C161584116","wikidata":"https://www.wikidata.org/wiki/Q1952580","display_name":"Multivariate statistics","level":2,"score":0.44129228591918945},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.38951072096824646},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.31922584772109985},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.2325846254825592},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.06665557622909546},{"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/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1142/s0219720010004860","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720010004860","pdf_url":null,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Bioinformatics and Computational Biology","raw_type":"journal-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320335125","display_name":"RIKEN","ror":"https://ror.org/01sjwvz98"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":54,"referenced_works":["https://openalex.org/W143485405","https://openalex.org/W1562578440","https://openalex.org/W1578330309","https://openalex.org/W1920846434","https://openalex.org/W1970998723","https://openalex.org/W1971428016","https://openalex.org/W1981547652","https://openalex.org/W1985728412","https://openalex.org/W1995884203","https://openalex.org/W1996345066","https://openalex.org/W1998253936","https://openalex.org/W2014798602","https://openalex.org/W2021768951","https://openalex.org/W2025341678","https://openalex.org/W2025616741","https://openalex.org/W2028329161","https://openalex.org/W2033284638","https://openalex.org/W2038845560","https://openalex.org/W2041489975","https://openalex.org/W2045218416","https://openalex.org/W2047694274","https://openalex.org/W2049058758","https://openalex.org/W2050719171","https://openalex.org/W2063698478","https://openalex.org/W2065515536","https://openalex.org/W2066400502","https://openalex.org/W2071275297","https://openalex.org/W2074570559","https://openalex.org/W2077514460","https://openalex.org/W2096023955","https://openalex.org/W2099235429","https://openalex.org/W2102174623","https://openalex.org/W2103341747","https://openalex.org/W2105712639","https://openalex.org/W2107877605","https://openalex.org/W2108064559","https://openalex.org/W2108659514","https://openalex.org/W2112440119","https://openalex.org/W2120337162","https://openalex.org/W2123993001","https://openalex.org/W2126382449","https://openalex.org/W2130535167","https://openalex.org/W2132663737","https://openalex.org/W2133280087","https://openalex.org/W2136562407","https://openalex.org/W2136692693","https://openalex.org/W2170753621","https://openalex.org/W2178225550","https://openalex.org/W2333894261","https://openalex.org/W2947626232","https://openalex.org/W3125544322","https://openalex.org/W4230727635","https://openalex.org/W4297440291","https://openalex.org/W4298870207"],"related_works":["https://openalex.org/W4242807451","https://openalex.org/W2035792466","https://openalex.org/W2977645287","https://openalex.org/W4251418261","https://openalex.org/W2118326920","https://openalex.org/W1972675643","https://openalex.org/W2056895937","https://openalex.org/W2911392473","https://openalex.org/W2154758532","https://openalex.org/W2753931199"],"abstract_inverted_index":{"Wiener":[0],"and":[1,63,174,220,230],"Granger":[2,37,46,69,106,113,148],"have":[3],"introduced":[4],"an":[5,22],"intuitive":[6],"concept":[7,33,57,108,146,189,215],"of":[8,117,124,130,138,147,152,196,234,252,255,267,289],"causality":[9,47,70,107,149],"(Granger":[10],"causality)":[11],"between":[12,115,140],"two":[13],"variables":[14,41,153],"which":[15,269],"is":[16,48,58,71,154,166,170,246,257,262,270],"based":[17,239],"on":[18,240],"the":[19,53,85,104,136,194,197,207,250,286],"idea":[20],"that":[21],"effect":[23],"never":[24],"occurs":[25],"before":[26],"its":[27,160],"cause.":[28],"Later,":[29],"Geweke":[30],"generalized":[31,224],"this":[32,56,214,260,274],"to":[34,60,81,96,111,184,206,216,225,279],"a":[35,122,157,163,253],"multivariate":[36,105],"causality,":[38],"i.e.":[39,120],"n":[40,125],"Granger-cause":[42],"another":[43,128,265],"variable.":[44],"Although":[45],"not":[49],"\"effective":[50],"causality\"":[51],"in":[52,66,94,109,172,176,182,210,247],"Aristothelic":[54],"sense,":[55],"useful":[59,192,278],"infer":[61,280],"directionality":[62],"information":[64,139,199,242,275],"flow":[65,137,200],"observational":[67],"data.":[68],"usually":[72],"identified":[73],"by":[74,264],"using":[75],"VAR":[76],"(Vector":[77],"Autoregressive)":[78],"models":[79,91],"due":[80],"their":[82],"simplicity.":[83],"In":[84],"last":[86],"few":[87],"years,":[88],"several":[89],"VAR-based":[90],"were":[92],"presented":[93],"order":[95,110,183],"model":[97,185],"gene":[98,118,141,179],"regulatory":[99,186,211],"networks.":[100,187,212],"Here,":[101],"we":[102],"generalize":[103],"identify":[112],"causalities":[114],"sets":[116,151,233],"expressions,":[119],"whether":[121],"set":[123,129,254,261,266,288],"genes":[126,235,256,268],"Granger-causes":[127],"m":[131],"genes,":[132],"aiming":[133],"at":[134],"identifying":[135],"networks":[142],"(or":[143],"pathways).":[144],"The":[145],"for":[150,159,193,232],"presented.":[155],"Moreover,":[156,228],"method":[158,169],"identification":[161],"with":[162],"bootstrap":[164],"test":[165],"proposed.":[167],"This":[168,188],"applied":[171],"simulated":[173],"also":[175],"actual":[177],"biological":[178],"expression":[180],"data":[181],"may":[190,276],"be":[191,223,237,277],"understanding":[195],"complete":[198],"from":[201],"one":[202],"network":[203],"or":[204,281],"pathway":[205],"other,":[208],"mainly":[209],"Linking":[213],"graph":[217],"theory,":[218],"sink":[219],"source":[221],"can":[222,236],"node":[226],"sets.":[227],"hub":[229],"centrality":[231],"defined":[238],"total":[241],"flow.":[243],"Another":[244],"application":[245],"annotation,":[248],"when":[249],"functionality":[251],"unknown,":[258],"but":[259],"Granger-caused":[263],"well":[271],"studied.":[272],"Therefore,":[273],"construct":[282],"some":[283],"hypothesis":[284],"about":[285],"unknown":[287],"genes.":[290]},"counts_by_year":[{"year":2024,"cited_by_count":2},{"year":2021,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2017,"cited_by_count":3},{"year":2016,"cited_by_count":1},{"year":2014,"cited_by_count":1},{"year":2012,"cited_by_count":3}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
