{"id":"https://openalex.org/W3027340121","doi":"https://doi.org/10.1109/ijcnn48605.2020.9206748","title":"Correlated Mixed Membership Modeling for Somatic Mutations","display_name":"Correlated Mixed Membership Modeling for Somatic Mutations","publication_year":2020,"publication_date":"2020-07-01","ids":{"openalex":"https://openalex.org/W3027340121","doi":"https://doi.org/10.1109/ijcnn48605.2020.9206748","mag":"3027340121"},"language":"en","primary_location":{"id":"doi:10.1109/ijcnn48605.2020.9206748","is_oa":false,"landing_page_url":"https://doi.org/10.1109/ijcnn48605.2020.9206748","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2020 International Joint Conference on Neural Networks (IJCNN)","raw_type":"proceedings-article"},"type":"preprint","indexed_in":["arxiv","crossref","datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://arxiv.org/pdf/2005.10919","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5075370793","display_name":"Rahul Mehta","orcid":"https://orcid.org/0000-0002-7134-616X"},"institutions":[{"id":"https://openalex.org/I39422238","display_name":"University of Illinois Chicago","ror":"https://ror.org/02mpq6x41","country_code":"US","type":"education","lineage":["https://openalex.org/I39422238"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Rahul Mehta","raw_affiliation_strings":["University of Illinois at Chicago,Department of Bioengineering,Chicago,IL,USA","University of Illinois at #TAB#Chicago"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Illinois at Chicago,Department of Bioengineering,Chicago,IL,USA","institution_ids":["https://openalex.org/I39422238"]},{"raw_affiliation_string":"University of Illinois at #TAB#Chicago","institution_ids":["https://openalex.org/I39422238"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5056117361","display_name":"Muge Karaman","orcid":"https://orcid.org/0000-0002-7080-7307"},"institutions":[{"id":"https://openalex.org/I39422238","display_name":"University of Illinois Chicago","ror":"https://ror.org/02mpq6x41","country_code":"US","type":"education","lineage":["https://openalex.org/I39422238"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Muge Karaman","raw_affiliation_strings":["Center for Magnetic Resonance Research University of Illinois at Chicago,Department of Bioengineering,Chicago,IL,USA","University of Illinois at #TAB#Chicago"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Magnetic Resonance Research University of Illinois at Chicago,Department of Bioengineering,Chicago,IL,USA","institution_ids":["https://openalex.org/I39422238"]},{"raw_affiliation_string":"University of Illinois at #TAB#Chicago","institution_ids":["https://openalex.org/I39422238"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I39422238"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.04424931,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"1","last_page":"8"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.9998999834060669,"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"}},"topics":[{"id":"https://openalex.org/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.9998999834060669,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9983999729156494,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9957000017166138,"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/mutation","display_name":"Mutation","score":0.5627308487892151},{"id":"https://openalex.org/keywords/inference","display_name":"Inference","score":0.5571013689041138},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4865535795688629},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4540882110595703},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.45054543018341064},{"id":"https://openalex.org/keywords/negative-binomial-distribution","display_name":"Negative binomial distribution","score":0.44057339429855347},{"id":"https://openalex.org/keywords/germline-mutation","display_name":"Germline mutation","score":0.4250744581222534},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.3468204140663147},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.277426540851593},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.2045654058456421},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.20182719826698303},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.11014130711555481},{"id":"https://openalex.org/keywords/poisson-distribution","display_name":"Poisson distribution","score":0.08548599481582642}],"concepts":[{"id":"https://openalex.org/C501734568","wikidata":"https://www.wikidata.org/wiki/Q42918","display_name":"Mutation","level":3,"score":0.5627308487892151},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.5571013689041138},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4865535795688629},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4540882110595703},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.45054543018341064},{"id":"https://openalex.org/C199335787","wikidata":"https://www.wikidata.org/wiki/Q743364","display_name":"Negative binomial distribution","level":3,"score":0.44057339429855347},{"id":"https://openalex.org/C13514818","wikidata":"https://www.wikidata.org/wiki/Q5552256","display_name":"Germline mutation","level":4,"score":0.4250744581222534},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.3468204140663147},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.277426540851593},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.2045654058456421},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.20182719826698303},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.11014130711555481},{"id":"https://openalex.org/C100906024","wikidata":"https://www.wikidata.org/wiki/Q205692","display_name":"Poisson distribution","level":2,"score":0.08548599481582642}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1109/ijcnn48605.2020.9206748","is_oa":false,"landing_page_url":"https://doi.org/10.1109/ijcnn48605.2020.9206748","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2020 International Joint Conference on Neural Networks (IJCNN)","raw_type":"proceedings-article"},{"id":"pmh:oai:arXiv.org:2005.10919","is_oa":true,"landing_page_url":"http://arxiv.org/abs/2005.10919","pdf_url":"https://arxiv.org/pdf/2005.10919","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"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"},{"id":"mag:3027340121","is_oa":true,"landing_page_url":"https://arxiv.org/pdf/2005.10919.pdf","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"arXiv (Cornell University)","raw_type":null},{"id":"doi:10.48550/arxiv.2005.10919","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.2005.10919","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"Preprint"}],"best_oa_location":{"id":"pmh:oai:arXiv.org:2005.10919","is_oa":true,"landing_page_url":"http://arxiv.org/abs/2005.10919","pdf_url":"https://arxiv.org/pdf/2005.10919","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"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"},"sustainable_development_goals":[{"score":0.46000000834465027,"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320309480","display_name":"Nvidia","ror":"https://ror.org/03jdj4y14"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3027340121.pdf"},"referenced_works_count":36,"referenced_works":["https://openalex.org/W166614460","https://openalex.org/W788250537","https://openalex.org/W1494853941","https://openalex.org/W1522301498","https://openalex.org/W2008056655","https://openalex.org/W2064955010","https://openalex.org/W2085534751","https://openalex.org/W2088891952","https://openalex.org/W2109614047","https://openalex.org/W2112050062","https://openalex.org/W2116350082","https://openalex.org/W2126172213","https://openalex.org/W2149441684","https://openalex.org/W2152239989","https://openalex.org/W2159482845","https://openalex.org/W2166851633","https://openalex.org/W2172611079","https://openalex.org/W2185743839","https://openalex.org/W2352491315","https://openalex.org/W2624021832","https://openalex.org/W2901677030","https://openalex.org/W2944128992","https://openalex.org/W2947209894","https://openalex.org/W2951004968","https://openalex.org/W2952478253","https://openalex.org/W2964156730","https://openalex.org/W2964335858","https://openalex.org/W4294216483","https://openalex.org/W6631190155","https://openalex.org/W6640963894","https://openalex.org/W6676519436","https://openalex.org/W6682331158","https://openalex.org/W6684578138","https://openalex.org/W6686224408","https://openalex.org/W6734688555","https://openalex.org/W6762022564"],"related_works":["https://openalex.org/W3091216316","https://openalex.org/W2955516635","https://openalex.org/W2795799681","https://openalex.org/W2887733858","https://openalex.org/W2043973552","https://openalex.org/W1989795110","https://openalex.org/W3018337700","https://openalex.org/W2965204273","https://openalex.org/W2077893081","https://openalex.org/W2147761302","https://openalex.org/W2796333631","https://openalex.org/W2143213125","https://openalex.org/W2787201519","https://openalex.org/W3161166355","https://openalex.org/W2072484097","https://openalex.org/W3030144453","https://openalex.org/W2212603291","https://openalex.org/W3003909732","https://openalex.org/W2060629549","https://openalex.org/W3123369614"],"abstract_inverted_index":{"Recent":[0],"studies":[1],"of":[2,18,51,70,84,107],"cancer":[3,41,45,58],"somatic":[4,108,184],"mutation":[5,55,109],"profiles":[6,110],"seek":[7],"to":[8,78,102,143],"identify":[9,79,179],"mutations":[10,64,85,124],"for":[11,86],"targeted":[12],"therapy":[13],"in":[14,67],"personalized":[15],"medicine.":[16],"Analysis":[17],"profiles,":[19],"however,":[20],"is":[21,27,59,76],"not":[22],"trivial,":[23],"as":[24,44],"each":[25],"profile":[26,145],"heterogeneous":[28],"and":[29,53,139,157],"there":[30],"are":[31,132,150],"multiple":[32],"confounding":[33],"factors":[34],"that":[35,131],"influence":[36],"the":[37,68,96,104,162,174,175],"cause-and-effect":[38],"relationships":[39],"between":[40,183],"genes":[42],"such":[43],"(sub)type,":[46],"biological":[47,72],"processes,":[48,73],"total":[49],"number":[50],"mutations,":[52],"non-linear":[54],"interactions.":[56],"Moreover,":[57],"biologically":[60,180],"redundant,":[61],"i.e.,":[62],"distinct":[63],"can":[65],"result":[66],"alteration":[69],"similar":[71],"so":[74],"it":[75],"important":[77],"all":[80],"possible":[81],"combinatorial":[82],"sets":[83],"effective":[87],"patient":[88],"treatment.":[89],"To":[90],"model":[91,144,148],"this":[92],"phenomena,":[93],"we":[94,178],"propose":[95],"correlated":[97,136],"zero-inflated":[98],"negative":[99,127],"binomial":[100,128],"process":[101,116,138],"infer":[103],"inherent":[105],"structure":[106],"through":[111],"latent":[112,176],"representations.":[113],"This":[114],"stochastic":[115,158],"takes":[117],"into":[118],"account":[119],"different,":[120],"yet":[121],"correlated,":[122],"co-occurring":[123],"using":[125,161],"profile-specific":[126],"dispersion":[129],"parameters":[130,149],"mixed":[133],"with":[134],"a":[135,140],"beta-Bernoulli":[137],"probability":[141],"parameter":[142],"heterogeneity.":[146],"These":[147],"inferred":[151],"by":[152],"iterative":[153],"optimization":[154],"via":[155],"amortized":[156],"variational":[159],"inference":[160],"Pan":[163],"Cancer":[164,168],"dataset":[165],"from":[166],"The":[167],"Genomic":[169],"Archive":[170],"(TCGA).":[171],"By":[172],"examining":[173],"space,":[177],"relevant":[181],"correlations":[182],"mutations.":[185]},"counts_by_year":[],"updated_date":"2026-07-01T08:55:40.977307","created_date":"2025-10-10T00:00:00"}