{"id":"https://openalex.org/W2069986908","doi":"https://doi.org/10.1186/1471-2105-9-467","title":"Learning transcriptional regulatory networks from high throughput gene expression data using continuous three-way mutual information","display_name":"Learning transcriptional regulatory networks from high throughput gene expression data using continuous three-way mutual information","publication_year":2008,"publication_date":"2008-11-03","ids":{"openalex":"https://openalex.org/W2069986908","doi":"https://doi.org/10.1186/1471-2105-9-467","mag":"2069986908","pmid":"https://pubmed.ncbi.nlm.nih.gov/18980677"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-9-467","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-9-467","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-9-467","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/counter/pdf/10.1186/1471-2105-9-467","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5036624301","display_name":"Weijun Luo","orcid":"https://orcid.org/0000-0001-8950-996X"},"institutions":[{"id":"https://openalex.org/I2750212522","display_name":"Cold Spring Harbor Laboratory","ror":"https://ror.org/02qz8b764","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I2750212522"]},{"id":"https://openalex.org/I27837315","display_name":"University of Michigan","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Weijun Luo","raw_affiliation_strings":["Department of Biomedical Engineering, University of Michigan, Ann Arbor, MI 48109, USA. luo@cshl.edu","Department of Biomedical Engineering, University of Michigan, Ann Arbor","Bioinformatics Shared Resource, Cold Spring Harbor Laboratory, Cold Spring Harbor"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biomedical Engineering, University of Michigan, Ann Arbor, MI 48109, USA. luo@cshl.edu","institution_ids":["https://openalex.org/I27837315"]},{"raw_affiliation_string":"Department of Biomedical Engineering, University of Michigan, Ann Arbor","institution_ids":["https://openalex.org/I27837315"]},{"raw_affiliation_string":"Bioinformatics Shared Resource, Cold Spring Harbor Laboratory, Cold Spring Harbor","institution_ids":["https://openalex.org/I2750212522"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016269004","display_name":"Kurt D. Hankenson","orcid":"https://orcid.org/0000-0001-6361-143X"},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kurt D Hankenson","raw_affiliation_strings":["Department of Animal Biology, University of Pennsylvania, Philadelphia, PA, 19104, USA","Department of Animal Biology, University of Pennsylvania, Philadelphia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Animal Biology, University of Pennsylvania, Philadelphia, PA, 19104, USA","institution_ids":["https://openalex.org/I79576946"]},{"raw_affiliation_string":"Department of Animal Biology, University of Pennsylvania, Philadelphia","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5049198802","display_name":"Peter Woolf","orcid":null},"institutions":[{"id":"https://openalex.org/I27837315","display_name":"University of Michigan","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Peter J Woolf","raw_affiliation_strings":["Bioinformatics Program, University of Michigan, Ann Arbor, MI, 48109, USA","Department of Biomedical Engineering, University of Michigan, Ann Arbor, MI, 48109, USA","Department of Chemical Engineering, University of Michigan, Ann Arbor, MI, 48109, USA","Department of Biomedical Engineering, University of Michigan, Ann Arbor","Department of Chemical Engineering, University of Michigan, Ann Arbor, USA","Bioinformatics Program, University of Michigan, Ann Arbor"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Program, University of Michigan, Ann Arbor, MI, 48109, USA","institution_ids":["https://openalex.org/I27837315"]},{"raw_affiliation_string":"Department of Biomedical Engineering, University of Michigan, Ann Arbor, MI, 48109, USA","institution_ids":["https://openalex.org/I27837315"]},{"raw_affiliation_string":"Department of Chemical Engineering, University of Michigan, Ann Arbor, MI, 48109, USA","institution_ids":["https://openalex.org/I27837315"]},{"raw_affiliation_string":"Department of Biomedical Engineering, University of Michigan, Ann Arbor","institution_ids":["https://openalex.org/I27837315"]},{"raw_affiliation_string":"Department of Chemical Engineering, University of Michigan, Ann Arbor, USA","institution_ids":["https://openalex.org/I27837315"]},{"raw_affiliation_string":"Bioinformatics Program, University of Michigan, Ann Arbor","institution_ids":["https://openalex.org/I27837315"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5049198802"],"corresponding_institution_ids":["https://openalex.org/I27837315"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":2.3862,"has_fulltext":true,"cited_by_count":80,"citation_normalized_percentile":{"value":0.88557678,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"9","issue":"1","first_page":"467","last_page":"467"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.5755000114440918,"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":0.5755000114440918,"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/T10885","display_name":"Gene expression and cancer classification","score":0.148499995470047,"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/T11303","display_name":"Bayesian Modeling and Causal Inference","score":0.1143999993801117,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"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/computer-science","display_name":"Computer science","score":0.6537830233573914},{"id":"https://openalex.org/keywords/mutual-information","display_name":"Mutual information","score":0.5954461097717285},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.5616078972816467},{"id":"https://openalex.org/keywords/bayesian-network","display_name":"Bayesian network","score":0.538682222366333},{"id":"https://openalex.org/keywords/bayes-theorem","display_name":"Bayes' theorem","score":0.5173096656799316},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.5149974822998047},{"id":"https://openalex.org/keywords/bayesian-probability","display_name":"Bayesian probability","score":0.5086206197738647},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.5075737237930298},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.4441150426864624},{"id":"https://openalex.org/keywords/representation","display_name":"Representation (politics)","score":0.4405900835990906},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4177801012992859},{"id":"https://openalex.org/keywords/sensitivity","display_name":"Sensitivity (control systems)","score":0.41406726837158203},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.38203293085098267},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2382661998271942},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.18305549025535583},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.1787600815296173},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.09896838665008545}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6537830233573914},{"id":"https://openalex.org/C152139883","wikidata":"https://www.wikidata.org/wiki/Q252973","display_name":"Mutual information","level":2,"score":0.5954461097717285},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.5616078972816467},{"id":"https://openalex.org/C33724603","wikidata":"https://www.wikidata.org/wiki/Q812540","display_name":"Bayesian network","level":2,"score":0.538682222366333},{"id":"https://openalex.org/C207201462","wikidata":"https://www.wikidata.org/wiki/Q182505","display_name":"Bayes' theorem","level":3,"score":0.5173096656799316},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5149974822998047},{"id":"https://openalex.org/C107673813","wikidata":"https://www.wikidata.org/wiki/Q812534","display_name":"Bayesian probability","level":2,"score":0.5086206197738647},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.5075737237930298},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.4441150426864624},{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.4405900835990906},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4177801012992859},{"id":"https://openalex.org/C21200559","wikidata":"https://www.wikidata.org/wiki/Q7451068","display_name":"Sensitivity (control systems)","level":2,"score":0.41406726837158203},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.38203293085098267},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2382661998271942},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.18305549025535583},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.1787600815296173},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.09896838665008545},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.0},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0},{"id":"https://openalex.org/C94625758","wikidata":"https://www.wikidata.org/wiki/Q7163","display_name":"Politics","level":2,"score":0.0},{"id":"https://openalex.org/C24326235","wikidata":"https://www.wikidata.org/wiki/Q126095","display_name":"Electronic engineering","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1186/1471-2105-9-467","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-9-467","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-9-467","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:18980677","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/18980677","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:ec6616d489824349b6f665adb3af8340","is_oa":false,"landing_page_url":"https://doaj.org/article/ec6616d489824349b6f665adb3af8340","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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics, Vol 9, Iss 1, p 467 (2008)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:2613931","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2613931","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":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:repository.cshl.edu:27557","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4306402288","display_name":"Cold Spring Harbor Laboratory Institutional Repository (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"","raw_type":"Paper"},{"id":"pmh:oai:deepblue.lib.umich.edu:2027.42/112599","is_oa":false,"landing_page_url":"http://hdl.handle.net/2027.42/112599","pdf_url":null,"source":{"id":"https://openalex.org/S4306400393","display_name":"Deep Blue (University of Michigan)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I27837315","host_organization_name":"University of Michigan","host_organization_lineage":["https://openalex.org/I27837315"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Article"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-9-467","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-9-467","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-9-467","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/G7645174683","display_name":null,"funder_award_id":"U54-DA-021519","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320310145","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2069986908.pdf","grobid_xml":"https://content.openalex.org/works/W2069986908.grobid-xml"},"referenced_works_count":57,"referenced_works":["https://openalex.org/W204885769","https://openalex.org/W1547789987","https://openalex.org/W1599969036","https://openalex.org/W1769824028","https://openalex.org/W1799396364","https://openalex.org/W1865095438","https://openalex.org/W1893505266","https://openalex.org/W1937631396","https://openalex.org/W1970156673","https://openalex.org/W1992452843","https://openalex.org/W2004569578","https://openalex.org/W2012598468","https://openalex.org/W2013807373","https://openalex.org/W2018443891","https://openalex.org/W2049992341","https://openalex.org/W2061280979","https://openalex.org/W2073307618","https://openalex.org/W2078149659","https://openalex.org/W2081500012","https://openalex.org/W2082293106","https://openalex.org/W2100015718","https://openalex.org/W2100097418","https://openalex.org/W2102471334","https://openalex.org/W2103453943","https://openalex.org/W2103614491","https://openalex.org/W2109503445","https://openalex.org/W2116634113","https://openalex.org/W2116855282","https://openalex.org/W2117994680","https://openalex.org/W2120006551","https://openalex.org/W2121963546","https://openalex.org/W2123641599","https://openalex.org/W2125631472","https://openalex.org/W2129905273","https://openalex.org/W2130494035","https://openalex.org/W2135827569","https://openalex.org/W2138366746","https://openalex.org/W2143891888","https://openalex.org/W2150926065","https://openalex.org/W2157826971","https://openalex.org/W2158973107","https://openalex.org/W2159080219","https://openalex.org/W2159856482","https://openalex.org/W2160533336","https://openalex.org/W2160697532","https://openalex.org/W2161409973","https://openalex.org/W2163288162","https://openalex.org/W2170260871","https://openalex.org/W2170989872","https://openalex.org/W2419538473","https://openalex.org/W2611370172","https://openalex.org/W2887002214","https://openalex.org/W3133236490","https://openalex.org/W3213154483","https://openalex.org/W4233014035","https://openalex.org/W4247420482","https://openalex.org/W4250292288"],"related_works":["https://openalex.org/W2466816617","https://openalex.org/W1970834875","https://openalex.org/W3174028392","https://openalex.org/W842936808","https://openalex.org/W2000517284","https://openalex.org/W2136503713","https://openalex.org/W2365318811","https://openalex.org/W2375330620","https://openalex.org/W2913710507","https://openalex.org/W2349909726"],"abstract_inverted_index":{"BACKGROUND:":[0],"Probability":[1],"based":[2],"statistical":[3,37],"learning":[4,38],"methods":[5,48,143],"such":[6],"as":[7,15],"mutual":[8,129],"information":[9,130],"and":[10,62,94,109,131,141,166,192,243,254,276],"Bayesian":[11,125],"networks":[12],"have":[13],"emerged":[14],"a":[16,35,76,110,132,146,156,245],"major":[17,189,194],"category":[18],"of":[19,52,57,66,80,107,114,135,215,225,228],"tools":[20],"for":[21,248],"reverse":[22],"engineering":[23],"mechanistic":[24,250],"relationships":[25,61,251],"from":[26,155,169,184,274,277],"quantitative":[27],"biological":[28,83,253],"data.":[29,96],"In":[30,97,116],"this":[31],"work":[32,233],"we":[33,74],"introduce":[34],"new":[36],"strategy,":[39],"MI3":[40,89,102,118,140,163,178,187,209,236,259],"that":[41,212,235],"addresses":[42],"three":[43],"common":[44],"issues":[45],"in":[46,197,263,265],"previous":[47],"simultaneously:":[49],"(1)":[50],"handling":[51],"continuous":[53],"variables,":[54],"(2)":[55],"detection":[56],"more":[58,77],"complex":[59,256],"three-way":[60],"(3)":[63],"better":[64],"differentiation":[65],"causal":[67,182],"versus":[68],"confounding":[69,185],"relationships.":[70],"With":[71],"these":[72],"improvements,":[73],"provide":[75],"realistic":[78],"representation":[79],"the":[81,88,98,121,151,223,238,266,271,278],"underlying":[82,252],"system.":[84],"RESULTS:":[85],"We":[86,137],"test":[87],"algorithm":[90],"using":[91],"both":[92,113],"synthetic":[93,99],"experimental":[95],"data":[100],"experiment,":[101],"achieved":[103],"an":[104],"absolute":[105],"sensitivity/precision":[106,112],"0.77/0.83":[108],"relative":[111],"0.99.":[115],"addition,":[117],"significantly":[119],"outperformed":[120],"control":[122,142,173,176,222,241],"methods,":[123,177,242],"including":[124],"networks,":[126],"classical":[127],"two-way":[128],"discrete":[133],"version":[134],"MI3.":[136],"then":[138],"used":[139,240],"to":[144,221],"infer":[145],"regulatory":[147,216],"network":[148,210],"centered":[149],"at":[150],"MYC":[152,190,198],"transcription":[153],"factor":[154],"published":[157],"microarray":[158],"dataset.":[159],"Models":[160],"selected":[161,171],"by":[162,172,206],"were":[164],"numerically":[165],"biologically":[167],"distinct":[168],"those":[170],"methods.":[174],"Unlike":[175],"effectively":[179],"differentiated":[180],"true":[181],"models":[183],"models.":[186],"recovered":[188],"cofactors,":[191],"revealed":[193],"mechanisms":[195,217],"involved":[196],"dependent":[199],"transcriptional":[200],"regulation,":[201],"which":[202],"are":[203,218],"strongly":[204],"supported":[205],"literature.":[207],"The":[208,258],"showed":[211],"limited":[213],"sets":[214],"employed":[219],"repeatedly":[220],"expression":[224],"large":[226],"number":[227],"genes.":[229],"CONCLUSION:":[230],"Overall,":[231],"our":[232],"demonstrates":[234],"outperforms":[237],"frequently":[239],"provides":[244],"powerful":[246],"method":[247,260],"inferring":[249],"other":[255],"systems.":[257],"is":[261],"implemented":[262],"R":[264,279],"\"mi3\"":[267],"package,":[268],"available":[269],"under":[270],"GNU":[272],"GPL":[273],"http://sysbio.engin.umich.edu/~luow/downloads.php":[275],"package":[280],"archive":[281],"CRAN.":[282]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":6},{"year":2023,"cited_by_count":6},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":5},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":6},{"year":2016,"cited_by_count":8},{"year":2015,"cited_by_count":5},{"year":2014,"cited_by_count":6},{"year":2013,"cited_by_count":5},{"year":2012,"cited_by_count":2}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
