{"id":"https://openalex.org/W2963382551","doi":"https://doi.org/10.1093/bioinformatics/btw242","title":"WeSME: uncovering mutual exclusivity of cancer drivers and beyond","display_name":"WeSME: uncovering mutual exclusivity of cancer drivers and beyond","publication_year":2016,"publication_date":"2016-05-02","ids":{"openalex":"https://openalex.org/W2963382551","doi":"https://doi.org/10.1093/bioinformatics/btw242","mag":"2963382551","pmid":"https://pubmed.ncbi.nlm.nih.gov/27153670"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btw242","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw242","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/6/814/25147853/btw242.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/33/6/814/25147853/btw242.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5113946149","display_name":"Yoo-Ah Kim","orcid":null},"institutions":[{"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":["NCBI, NLM, NIH, Bethesda, MD, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"NCBI, NLM, NIH, Bethesda, MD, USA","institution_ids":["https://openalex.org/I4210109390"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030786757","display_name":"Sanna Madan","orcid":"https://orcid.org/0000-0001-8865-5789"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Sanna Madan","raw_affiliation_strings":["Poolesville High School, PoolesvilleMD, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Poolesville High School, PoolesvilleMD, USA","institution_ids":[]}]},{"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/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":true,"raw_author_name":"Teresa M Przytycka","raw_affiliation_strings":["NCBI, NLM, NIH, Bethesda, MD, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"NCBI, NLM, NIH, Bethesda, MD, USA","institution_ids":["https://openalex.org/I4210109390"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5089548776"],"corresponding_institution_ids":["https://openalex.org/I4210109390"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":4.784,"has_fulltext":true,"cited_by_count":97,"citation_normalized_percentile":{"value":0.95514037,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":100},"biblio":{"volume":"33","issue":"6","first_page":"814","last_page":"821"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.38830000162124634,"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":0.38830000162124634,"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":0.2558000087738037,"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/T10261","display_name":"Genetic Associations and Epidemiology","score":0.13030000030994415,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/apobec","display_name":"APOBEC","score":0.891188383102417},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.6454846262931824},{"id":"https://openalex.org/keywords/cancer","display_name":"Cancer","score":0.6284316778182983},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5363553762435913},{"id":"https://openalex.org/keywords/breast-cancer","display_name":"Breast cancer","score":0.5066567063331604},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.4876047670841217},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.4781859219074249},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.47186750173568726},{"id":"https://openalex.org/keywords/permutation","display_name":"Permutation (music)","score":0.4699433445930481},{"id":"https://openalex.org/keywords/mutual-information","display_name":"Mutual information","score":0.45610859990119934},{"id":"https://openalex.org/keywords/mutation","display_name":"Mutation","score":0.43970200419425964},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4252203702926636},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.36083585023880005},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.17990243434906006},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.14647799730300903}],"concepts":[{"id":"https://openalex.org/C2776162770","wikidata":"https://www.wikidata.org/wiki/Q4653351","display_name":"APOBEC","level":4,"score":0.891188383102417},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.6454846262931824},{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.6284316778182983},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5363553762435913},{"id":"https://openalex.org/C530470458","wikidata":"https://www.wikidata.org/wiki/Q128581","display_name":"Breast cancer","level":3,"score":0.5066567063331604},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.4876047670841217},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.4781859219074249},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.47186750173568726},{"id":"https://openalex.org/C21308566","wikidata":"https://www.wikidata.org/wiki/Q7169365","display_name":"Permutation (music)","level":2,"score":0.4699433445930481},{"id":"https://openalex.org/C152139883","wikidata":"https://www.wikidata.org/wiki/Q252973","display_name":"Mutual information","level":2,"score":0.45610859990119934},{"id":"https://openalex.org/C501734568","wikidata":"https://www.wikidata.org/wiki/Q42918","display_name":"Mutation","level":3,"score":0.43970200419425964},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4252203702926636},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.36083585023880005},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.17990243434906006},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.14647799730300903},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","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":"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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D052138","descriptor_name":"Genes, Neoplasm","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D052138","descriptor_name":"Genes, Neoplasm","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D052138","descriptor_name":"Genes, Neoplasm","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btw242","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw242","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/6/814/25147853/btw242.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:27153670","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27153670","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:4847711","is_oa":true,"landing_page_url":"http://europepmc.org/pmc/articles/PMC5888950","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":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:5888950","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5888950","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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btw242","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw242","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/6/814/25147853/btw242.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":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2963382551.pdf","grobid_xml":"https://content.openalex.org/works/W2963382551.grobid-xml"},"referenced_works_count":37,"referenced_works":["https://openalex.org/W1582541231","https://openalex.org/W1763675400","https://openalex.org/W1911343030","https://openalex.org/W1966331733","https://openalex.org/W1967348777","https://openalex.org/W1968295028","https://openalex.org/W1984236815","https://openalex.org/W1990153910","https://openalex.org/W1997303368","https://openalex.org/W2004708951","https://openalex.org/W2008811015","https://openalex.org/W2009720434","https://openalex.org/W2011912935","https://openalex.org/W2016353836","https://openalex.org/W2022495797","https://openalex.org/W2041440766","https://openalex.org/W2042851051","https://openalex.org/W2066859759","https://openalex.org/W2069237225","https://openalex.org/W2082887122","https://openalex.org/W2096460732","https://openalex.org/W2114031931","https://openalex.org/W2121443461","https://openalex.org/W2132630169","https://openalex.org/W2132767411","https://openalex.org/W2141545130","https://openalex.org/W2141811925","https://openalex.org/W2144940507","https://openalex.org/W2147818634","https://openalex.org/W2151900247","https://openalex.org/W2152061559","https://openalex.org/W2159675211","https://openalex.org/W2165760244","https://openalex.org/W2294446650","https://openalex.org/W2601000897","https://openalex.org/W4230962320","https://openalex.org/W6654574116"],"related_works":["https://openalex.org/W2002128513","https://openalex.org/W2092874662","https://openalex.org/W2171277769","https://openalex.org/W1991523530","https://openalex.org/W2020824267","https://openalex.org/W2057739827","https://openalex.org/W2075354549","https://openalex.org/W2031436818","https://openalex.org/W2009966535","https://openalex.org/W2088063203"],"abstract_inverted_index":{"Motivation:":[0],"Mutual":[1],"exclusivity":[2,51,86,115,154,225],"is":[3,237],"a":[4,57,206,230,246],"widely":[5],"recognized":[6],"property":[7],"of":[8,49,60,102,125,198,208,216,229,248],"many":[9],"cancer":[10,21,26,39,45,138,165,177,203,250],"drivers.":[11,46],"Knowledge":[12],"about":[13],"these":[14],"relationships":[15],"can":[16,29,155],"provide":[17,157],"important":[18],"insights":[19],"into":[20],"drivers,":[22],"cancer-driving":[23],"pathways":[24],"and":[25,42,81,105,167,204,253],"subtypes.":[27],"It":[28],"also":[30,156],"be":[31],"used":[32],"to":[33,65,70,93,108,119,194],"predict":[34],"new":[35],"functional":[36],"interactions":[37,163],"between":[38,164],"driving":[40],"genes":[41,61,106,185,211],"uncover":[43,120],"novel":[44],"Currently,":[47],"most":[48],"mutual":[50,85,114,153,224],"analyses":[52],"are":[53,213,262],"preformed":[54],"focusing":[55],"on":[56],"limited":[58],"set":[59,207],"in":[62,144,175,189,201,227,245],"part":[63],"due":[64],"the":[66,78,99,109,162,238],"computational":[67],"cost":[68,80],"required":[69],"rigorously":[71],"compute":[72],"P":[73,95],"-values.":[74],"Results:":[75],"To":[76],"reduce":[77],"computing":[79],"perform":[82],"less":[83],"restricted":[84],"analysis,":[87],"we":[88,221],"developed":[89],"an":[90],"efficient":[91],"method":[92],"estimate":[94],"-values":[96],"while":[97],"controlling":[98],"mutation":[100,131],"rates":[101],"individual":[103],"patients":[104],"similar":[107],"permutation":[110],"test.":[111],"A":[112],"comprehensive":[113],"analysis":[116,191,226],"allowed":[117,192],"us":[118,193],"mutually":[121],"exclusive":[122],"pairs,":[123],"some":[124],"which":[126],"may":[127],"have":[128,141],"relatively":[129],"low":[130],"rates.":[132],"These":[133],"pairs":[134],"often":[135],"included":[136],"likely":[137],"drivers":[139,166],"that":[140,152,159,212,241],"been":[142],"missed":[143],"previous":[145],"analyses.":[146],"More":[147],"importantly,":[148],"our":[149,190,223],"results":[150],"demonstrated":[151],"information":[158],"goes":[160],"beyond":[161],"can,":[168],"for":[169],"example,":[170],"elucidate":[171],"different":[172,176],"mutagenic":[173],"processes":[174],"groups.":[178],"In":[179,219],"particular,":[180],"including":[181],"frequently":[182],"mutated,":[183],"long":[184],"such":[186],"as":[187],"TTN":[188],"observe":[195],"interesting":[196],"patterns":[197],"APOBEC":[199,235],"activity":[200,236],"breast":[202,249],"identify":[205],"related":[209],"driver":[210],"highly":[214],"predictive":[215],"patient":[217],"survival.":[218],"addition,":[220],"utilized":[222],"support":[228],"previously":[231],"proposed":[232],"model":[233],"where":[234],"underlying":[239],"process":[240],"causes":[242],"TP53":[243],"mutations":[244],"subset":[247],"cases.":[251],"Availability":[252],"Implementation:":[254],"http://www.ncbi.nlm.nih.gov/CBBresearch/Przytycka/index.cgi#wesme.":[255],"Contact:":[256],"przytyck@ncbi.nlm.nih.gov.":[257],"Supplementary":[258,260],"information:":[259],"data":[261],"available":[263],"at":[264],"Bioinformatics":[265],"online.":[266]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":12},{"year":2023,"cited_by_count":8},{"year":2022,"cited_by_count":11},{"year":2021,"cited_by_count":13},{"year":2020,"cited_by_count":18},{"year":2019,"cited_by_count":13},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":10},{"year":2016,"cited_by_count":1}],"updated_date":"2026-07-11T18:08:03.149640","created_date":"2025-10-10T00:00:00"}
