{"id":"https://openalex.org/W2141545130","doi":"https://doi.org/10.1093/bioinformatics/btv247","title":"MEMCover: integrated analysis of mutual exclusivity and functional network reveals dysregulated pathways across multiple cancer types","display_name":"MEMCover: integrated analysis of mutual exclusivity and functional network reveals dysregulated pathways across multiple cancer types","publication_year":2015,"publication_date":"2015-06-10","ids":{"openalex":"https://openalex.org/W2141545130","doi":"https://doi.org/10.1093/bioinformatics/btv247","mag":"2141545130","pmid":"https://pubmed.ncbi.nlm.nih.gov/26072494"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btv247","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv247","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/12/i284/17101817/btv247.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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","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":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/31/12/i284/17101817/btv247.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5111918598","display_name":"Yoo-Ah Kim","orcid":null},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yoo-Ah Kim","raw_affiliation_strings":["National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, 8600 Rockville Pike, Bethesda, MD, 20894, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, 8600 Rockville Pike, Bethesda, MD, 20894, USA","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210109390"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5007649502","display_name":"Dong-Yeon Cho","orcid":"https://orcid.org/0000-0002-4421-9982"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Dong-Yeon Cho","raw_affiliation_strings":["National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, 8600 Rockville Pike, Bethesda, MD, 20894, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, 8600 Rockville Pike, Bethesda, MD, 20894, USA","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210109390"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022850021","display_name":"Phuong Dao","orcid":"https://orcid.org/0000-0001-5285-6271"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Phuong Dao","raw_affiliation_strings":["National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, 8600 Rockville Pike, Bethesda, MD, 20894, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, 8600 Rockville Pike, Bethesda, MD, 20894, USA","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210109390"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5089548776","display_name":"Teresa M. Przytycka","orcid":"https://orcid.org/0000-0002-6261-277X"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Teresa M. Przytycka","raw_affiliation_strings":["National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, 8600 Rockville Pike, Bethesda, MD, 20894, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, 8600 Rockville Pike, Bethesda, MD, 20894, USA","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210109390"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":5.2342,"has_fulltext":false,"cited_by_count":105,"citation_normalized_percentile":{"value":0.96471556,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":91,"max":100},"biblio":{"volume":"31","issue":"12","first_page":"i284","last_page":"i292"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.559499979019165,"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":0.559499979019165,"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/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.37770000100135803,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T12422","display_name":"Radiomics and Machine Learning in Medical Imaging","score":0.015599999576807022,"subfield":{"id":"https://openalex.org/subfields/2741","display_name":"Radiology, Nuclear Medicine and Imaging"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/cancer","display_name":"Cancer","score":0.678817868232727},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5160595774650574},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4896612763404846},{"id":"https://openalex.org/keywords/class","display_name":"Class (philosophy)","score":0.440083384513855},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.40073928236961365},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2858843207359314},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.2254427671432495}],"concepts":[{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.678817868232727},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5160595774650574},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4896612763404846},{"id":"https://openalex.org/C2777212361","wikidata":"https://www.wikidata.org/wiki/Q5127848","display_name":"Class (philosophy)","level":2,"score":0.440083384513855},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.40073928236961365},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2858843207359314},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2254427671432495}],"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":"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":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015972","descriptor_name":"Gene Expression Regulation, Neoplastic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015972","descriptor_name":"Gene Expression Regulation, Neoplastic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015972","descriptor_name":"Gene Expression Regulation, Neoplastic","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":4,"locations":[{"id":"doi:10.1093/bioinformatics/btv247","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv247","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/12/i284/17101817/btv247.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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:26072494","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26072494","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:3871227","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4481701","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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:open-archive.highwire.org:bioinfo:31/12/i284","is_oa":false,"landing_page_url":"http://bioinformatics.oxfordjournals.org/cgi/content/short/31/12/i284","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"TEXT"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btv247","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv247","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/12/i284/17101817/btv247.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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/17","display_name":"Partnerships for the goals","score":0.4000000059604645}],"awards":[],"funders":[{"id":"https://openalex.org/F4320328486","display_name":"Narodowy Instytut Lek\u00f3w","ror":"https://ror.org/05m2pwn60"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337372","display_name":"U.S. National Library of Medicine","ror":"https://ror.org/0060t0j89"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":33,"referenced_works":["https://openalex.org/W570450981","https://openalex.org/W1499476884","https://openalex.org/W1582541231","https://openalex.org/W1600707216","https://openalex.org/W1899117259","https://openalex.org/W1966331733","https://openalex.org/W1974944535","https://openalex.org/W1994856499","https://openalex.org/W2009019945","https://openalex.org/W2022495797","https://openalex.org/W2024775366","https://openalex.org/W2025183726","https://openalex.org/W2042851051","https://openalex.org/W2044433401","https://openalex.org/W2088891952","https://openalex.org/W2095319945","https://openalex.org/W2110980655","https://openalex.org/W2114031931","https://openalex.org/W2121443461","https://openalex.org/W2132630169","https://openalex.org/W2140883620","https://openalex.org/W2144940507","https://openalex.org/W2145842706","https://openalex.org/W2158485828","https://openalex.org/W2159675211","https://openalex.org/W2161346574","https://openalex.org/W2275877493","https://openalex.org/W2335012284","https://openalex.org/W2601000897","https://openalex.org/W4230962320","https://openalex.org/W6616135103","https://openalex.org/W6656611719","https://openalex.org/W6681302068"],"related_works":["https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W2082860237","https://openalex.org/W1990804418","https://openalex.org/W2130076355","https://openalex.org/W1993764875","https://openalex.org/W2046158694","https://openalex.org/W1641042124","https://openalex.org/W2013243191","https://openalex.org/W2372895414"],"abstract_inverted_index":{"MOTIVATION:":[0],"The":[1],"data":[2,120],"gathered":[3],"by":[4],"the":[5,36,40,46,68,72,160,192],"Pan-Cancer":[6,139],"initiative":[7],"has":[8,29,82,150],"created":[9],"an":[10],"unprecedented":[11],"opportunity":[12],"for":[13],"illuminating":[14],"common":[15],"features":[16,24],"across":[17,26,75,103,147,185],"different":[18],"cancer":[19,27,44,50,59,76,148,169,186,196],"types.":[20],"However,":[21],"separating":[22],"tissue-specific":[23],"from":[25],"signatures":[28],"proven":[30],"to":[31,121,168],"be":[32],"challenging.":[33],"One":[34],"of":[35,39,43,49,92,162],"often-observed":[37],"properties":[38],"mutational":[41],"landscape":[42],"is":[45],"mutual":[47,77,93,116,163,197],"exclusivity":[48,78,94,106,117,164,198],"driving":[51],"mutations.":[52],"Even":[53],"though":[54],"studies":[55],"based":[56],"on":[57],"individual":[58],"types":[60,187],"suggested":[61],"that":[62,178],"mutually":[63,180],"exclusive":[64,181],"pairs":[65,182,193],"often":[66,202],"share":[67],"same":[69],"functional":[70,80,205],"pathway,":[71],"relationship":[73],"between":[74,108,195],"and":[79,107],"connectivity":[81],"not":[83,134,151],"been":[84,152],"previously":[85,137],"investigated.":[86],"RESULTS:":[87],"We":[88,112],"introduce":[89],"a":[90],"classification":[91],"into":[95],"three":[96],"basic":[97],"classes:":[98],"within":[99,183],"tissue":[100,104,109],"type":[101,105,110],"exclusivity,":[102],"exclusivity.":[111],"then":[113],"combined":[114],"across-cancer":[115],"with":[118,171],"interactions":[119],"uncover":[122],"pan-cancer":[123],"dysregulated":[124,140],"pathways.":[125],"Our":[126],"new":[127],"method,":[128],"Mutual":[129],"Exclusivity":[130],"Module":[131],"Cover":[132],"(MEMCover)":[133],"only":[135],"identified":[136],"known":[138],"subnetworks":[141,145],"but":[142],"also":[143],"novel":[144],"whose":[146],"role":[149],"appreciated":[153],"well":[154],"before.":[155],"In":[156],"addition,":[157],"we":[158,176],"demonstrate":[159],"existence":[161],"hubs,":[165],"putatively":[166],"corresponding":[167],"drivers":[170],"strong":[172],"growth":[173],"advantages.":[174],"Finally,":[175],"show":[177],"while":[179],"or":[184],"are":[188,200],"predominantly":[189],"functionally":[190],"interacting,":[191],"in":[194,204],"class":[199],"more":[201],"disconnected":[203],"networks.":[206]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":6},{"year":2023,"cited_by_count":6},{"year":2022,"cited_by_count":5},{"year":2021,"cited_by_count":13},{"year":2020,"cited_by_count":15},{"year":2019,"cited_by_count":18},{"year":2018,"cited_by_count":9},{"year":2017,"cited_by_count":12},{"year":2016,"cited_by_count":17}],"updated_date":"2026-07-22T07:51:19.307946","created_date":"2025-10-10T00:00:00"}