{"id":"https://openalex.org/W2890301877","doi":"https://doi.org/10.1093/bioinformatics/bty591","title":"piMGM: incorporating multi-source priors in mixed graphical models for learning disease networks","display_name":"piMGM: incorporating multi-source priors in mixed graphical models for learning disease networks","publication_year":2018,"publication_date":"2018-07-07","ids":{"openalex":"https://openalex.org/W2890301877","doi":"https://doi.org/10.1093/bioinformatics/bty591","mag":"2890301877","pmid":"https://pubmed.ncbi.nlm.nih.gov/30423087"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty591","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty591","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/17/i848/25702496/bty591.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/34/17/i848/25702496/bty591.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5017786978","display_name":"Dimitris V. Manatakis","orcid":"https://orcid.org/0000-0001-9196-198X"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Dimitris V Manatakis","raw_affiliation_strings":["Department of Computational and Systems Biology, University of Pittsburgh, Pittsburgh, PA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computational and Systems Biology, University of Pittsburgh, Pittsburgh, PA, USA","institution_ids":["https://openalex.org/I170201317"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065587860","display_name":"Vineet K. Raghu","orcid":"https://orcid.org/0000-0003-3524-3945"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Vineet K Raghu","raw_affiliation_strings":["Department of Computer Science, University of Pittsburgh, Pittsburgh, PA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Pittsburgh, Pittsburgh, PA, USA","institution_ids":["https://openalex.org/I170201317"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5042618575","display_name":"Panayiotis V. Benos","orcid":"https://orcid.org/0000-0003-3172-3132"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Panayiotis V Benos","raw_affiliation_strings":["Department of Computational and Systems Biology, University of Pittsburgh, Pittsburgh, PA, USA","Department of Computer Science, University of Pittsburgh, Pittsburgh, PA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computational and Systems Biology, University of Pittsburgh, Pittsburgh, PA, USA","institution_ids":["https://openalex.org/I170201317"]},{"raw_affiliation_string":"Department of Computer Science, University of Pittsburgh, Pittsburgh, PA, USA","institution_ids":["https://openalex.org/I170201317"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5017786978"],"corresponding_institution_ids":["https://openalex.org/I170201317"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.3195,"has_fulltext":true,"cited_by_count":24,"citation_normalized_percentile":{"value":0.80434424,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"34","issue":"17","first_page":"i848","last_page":"i856"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9291999936103821,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9291999936103821,"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":0.02669999934732914,"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"}},{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.014600000344216824,"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/prior-probability","display_name":"Prior probability","score":0.8360055088996887},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6852706670761108},{"id":"https://openalex.org/keywords/graphical-model","display_name":"Graphical model","score":0.6577516198158264},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.48184382915496826},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.4439448118209839},{"id":"https://openalex.org/keywords/bayesian-probability","display_name":"Bayesian probability","score":0.12359902262687683}],"concepts":[{"id":"https://openalex.org/C177769412","wikidata":"https://www.wikidata.org/wiki/Q278090","display_name":"Prior probability","level":3,"score":0.8360055088996887},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6852706670761108},{"id":"https://openalex.org/C155846161","wikidata":"https://www.wikidata.org/wiki/Q1143367","display_name":"Graphical model","level":2,"score":0.6577516198158264},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.48184382915496826},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.4439448118209839},{"id":"https://openalex.org/C107673813","wikidata":"https://www.wikidata.org/wiki/Q812534","display_name":"Bayesian probability","level":2,"score":0.12359902262687683}],"mesh":[{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004194","descriptor_name":"Disease","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004194","descriptor_name":"Disease","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004194","descriptor_name":"Disease","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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018401","descriptor_name":"Sample Size","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018401","descriptor_name":"Sample Size","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018401","descriptor_name":"Sample Size","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/bty591","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty591","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/17/i848/25702496/bty591.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:30423087","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30423087","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:europepmc.org:5675863","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6129280","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bty591","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty591","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/17/i848/25702496/bty591.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3","score":0.49000000953674316}],"awards":[{"id":"https://openalex.org/G1019732981","display_name":null,"funder_award_id":"T32 CA082084","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G1282600524","display_name":null,"funder_award_id":"R01 LM012087","funder_id":"https://openalex.org/F4320337372","funder_display_name":"U.S. National Library of Medicine"},{"id":"https://openalex.org/G2975004386","display_name":null,"funder_award_id":"R01LM012087","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G3654113402","display_name":null,"funder_award_id":"U01 HL137159","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G3726131279","display_name":null,"funder_award_id":"T32CA082084","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5991972933","display_name":null,"funder_award_id":"U01HL137159","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320310207","display_name":"Carnegie Mellon University","ror":"https://ror.org/05x2bcf33"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337338","display_name":"National Heart, Lung, and Blood Institute","ror":"https://ror.org/012pb6c26"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"},{"id":"https://openalex.org/F4320337372","display_name":"U.S. National Library of Medicine","ror":"https://ror.org/0060t0j89"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2890301877.pdf","grobid_xml":"https://content.openalex.org/works/W2890301877.grobid-xml"},"referenced_works_count":38,"referenced_works":["https://openalex.org/W196013777","https://openalex.org/W391985582","https://openalex.org/W1511986666","https://openalex.org/W1513861746","https://openalex.org/W1973070669","https://openalex.org/W2016806296","https://openalex.org/W2021556180","https://openalex.org/W2065014879","https://openalex.org/W2071892147","https://openalex.org/W2090551359","https://openalex.org/W2123270810","https://openalex.org/W2125105520","https://openalex.org/W2130410032","https://openalex.org/W2132105963","https://openalex.org/W2132555912","https://openalex.org/W2135630508","https://openalex.org/W2146453992","https://openalex.org/W2146980885","https://openalex.org/W2148029969","https://openalex.org/W2152401289","https://openalex.org/W2159482845","https://openalex.org/W2163702333","https://openalex.org/W2336310263","https://openalex.org/W2417388301","https://openalex.org/W2513942179","https://openalex.org/W2583433300","https://openalex.org/W2586275266","https://openalex.org/W2588286323","https://openalex.org/W2792988507","https://openalex.org/W2942228371","https://openalex.org/W2949606983","https://openalex.org/W4294216483","https://openalex.org/W4301253858","https://openalex.org/W4301588852","https://openalex.org/W4389022809","https://openalex.org/W6631500773","https://openalex.org/W6684098844","https://openalex.org/W6749709370"],"related_works":["https://openalex.org/W2961085424","https://openalex.org/W4306674287","https://openalex.org/W3046775127","https://openalex.org/W3107602296","https://openalex.org/W4394896187","https://openalex.org/W3170094116","https://openalex.org/W4386462264","https://openalex.org/W4364306694","https://openalex.org/W4312192474","https://openalex.org/W4283697347"],"abstract_inverted_index":{"Motivation:":[0],"Learning":[1],"probabilistic":[2,68],"graphs":[3,69],"over":[4,70],"mixed":[5,29,71],"data":[6,72,128,176],"is":[7,34,137],"an":[8,35],"important":[9,160],"way":[10],"to":[11,111,154],"combine":[12],"gene":[13],"expression":[14],"and":[15,117,126,131,164,170],"clinical":[16],"disease":[17,118],"data.":[18,52],"Leveraging":[19],"the":[20,45,65,91,145],"existing,":[21],"yet":[22],"imperfect,":[23],"information":[24,95,153],"in":[25,42,115,161],"pathway":[26,156],"databases":[27],"for":[28],"graphical":[30],"model":[31],"(MGM)":[32],"learning":[33],"understudied":[36],"problem":[37],"with":[38,63,80],"tremendous":[39],"potential":[40],"applications":[41],"systems":[43],"medicine,":[44],"problems":[46],"of":[47,67,83,93,147],"which":[48,60],"often":[49],"involve":[50],"high-dimensional":[51],"Results:":[53],"We":[54,85,120,143],"present":[55],"a":[56,97],"new":[57],"method,":[58],"piMGM,":[59],"can":[61,108],"learn":[62],"accuracy":[64],"structure":[66],"by":[73,140,149],"appropriately":[74],"incorporating":[75],"priors":[76],"from":[77,96,129],"multiple":[78],"experts":[79],"different":[81],"degrees":[82],"reliability.":[84],"show":[86],"that":[87,134,158],"piMGM":[88,122,148],"accurately":[89],"scores":[90,107],"reliability":[92,106],"prior":[94,152],"given":[98],"expert":[99],"even":[100],"at":[101,179],"low":[102],"sample":[103],"sizes.":[104],"The":[105],"be":[109],"used":[110],"determine":[112],"active":[113],"pathways":[114],"healthy":[116],"samples.":[119],"tested":[121],"on":[123],"both":[124],"simulated":[125],"real":[127],"TCGA,":[130],"we":[132],"found":[133],"its":[135],"performance":[136],"not":[138],"affected":[139],"unreliable":[141],"priors.":[142],"demonstrate":[144],"applicability":[146],"successfully":[150],"using":[151],"identify":[155],"components":[157],"are":[159,177],"breast":[162],"cancer":[163,166],"improve":[165],"subtype":[167],"classification.":[168],"Availability":[169],"implementation:":[171],"http://www.benoslab.pitt.edu/manatakisECCB2018.html.":[172],"Supplementary":[173,175],"information:":[174],"available":[178],"Bioinformatics":[180],"online.":[181]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":5},{"year":2020,"cited_by_count":5},{"year":2019,"cited_by_count":5},{"year":2018,"cited_by_count":1}],"updated_date":"2026-07-29T09:40:50.615796","created_date":"2025-10-10T00:00:00"}
