{"id":"https://openalex.org/W2888289165","doi":"https://doi.org/10.1145/3233547.3233619","title":"Interpretable Machine Learning Approach Reveals Developmental Gene Expression Biomarkers for Cancer Patient Outcomes at Early Stages","display_name":"Interpretable Machine Learning Approach Reveals Developmental Gene Expression Biomarkers for Cancer Patient Outcomes at Early Stages","publication_year":2018,"publication_date":"2018-08-15","ids":{"openalex":"https://openalex.org/W2888289165","doi":"https://doi.org/10.1145/3233547.3233619","mag":"2888289165"},"language":"en","primary_location":{"id":"doi:10.1145/3233547.3233619","is_oa":false,"landing_page_url":"https://doi.org/10.1145/3233547.3233619","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 2018 ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics","raw_type":"proceedings-article"},"type":"conference-abstract","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5044572209","display_name":"Alisha Kamat","orcid":null},"institutions":[{"id":"https://openalex.org/I59553526","display_name":"Stony Brook University","ror":"https://ror.org/05qghxh33","country_code":"US","type":"education","lineage":["https://openalex.org/I59553526"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alisha Kamat","raw_affiliation_strings":["Stony Brook University, Stony brook, NY, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Stony Brook University, Stony brook, NY, USA","institution_ids":["https://openalex.org/I59553526"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078492740","display_name":"Ting Jin","orcid":"https://orcid.org/0000-0001-5073-0667"},"institutions":[{"id":"https://openalex.org/I59553526","display_name":"Stony Brook University","ror":"https://ror.org/05qghxh33","country_code":"US","type":"education","lineage":["https://openalex.org/I59553526"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ting Jin","raw_affiliation_strings":["Stony Brook University, Stony brook, NY, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Stony Brook University, Stony brook, NY, USA","institution_ids":["https://openalex.org/I59553526"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054499979","display_name":"So-Yeon Min","orcid":"https://orcid.org/0000-0001-7466-3948"},"institutions":[{"id":"https://openalex.org/I63966007","display_name":"Massachusetts Institute of Technology","ror":"https://ror.org/042nb2s44","country_code":"US","type":"education","lineage":["https://openalex.org/I63966007"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"So Yeon Min","raw_affiliation_strings":["Massachusetts Institute of Technology, Cambridge, MA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Massachusetts Institute of Technology, Cambridge, MA, USA","institution_ids":["https://openalex.org/I63966007"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029059989","display_name":"Flaminia Talos","orcid":null},"institutions":[{"id":"https://openalex.org/I59553526","display_name":"Stony Brook University","ror":"https://ror.org/05qghxh33","country_code":"US","type":"education","lineage":["https://openalex.org/I59553526"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Flaminia Talos","raw_affiliation_strings":["Stony Brook University, Stony brook, NY, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Stony Brook University, Stony brook, NY, USA","institution_ids":["https://openalex.org/I59553526"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5012322429","display_name":"Jonas S. Almeida","orcid":"https://orcid.org/0000-0002-7883-7922"},"institutions":[{"id":"https://openalex.org/I59553526","display_name":"Stony Brook University","ror":"https://ror.org/05qghxh33","country_code":"US","type":"education","lineage":["https://openalex.org/I59553526"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jonas Almeida","raw_affiliation_strings":["Stony Brook University, Stony brook, NY, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Stony Brook University, Stony brook, NY, USA","institution_ids":["https://openalex.org/I59553526"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5053240500","display_name":"Daifeng Wang","orcid":"https://orcid.org/0000-0001-9190-3704"},"institutions":[{"id":"https://openalex.org/I59553526","display_name":"Stony Brook University","ror":"https://ror.org/05qghxh33","country_code":"US","type":"education","lineage":["https://openalex.org/I59553526"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Daifeng Wang","raw_affiliation_strings":["Stony Brook University, Stony brook, NY, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Stony Brook University, Stony brook, NY, USA","institution_ids":["https://openalex.org/I59553526"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"510","last_page":"510"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.8248000144958496,"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/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.8248000144958496,"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":0.762499988079071,"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"}},{"id":"https://openalex.org/T10862","display_name":"AI in cancer detection","score":0.6948000192642212,"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/cancer","display_name":"Cancer","score":0.6523575782775879},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.5805338621139526},{"id":"https://openalex.org/keywords/cancer-biomarkers","display_name":"Cancer biomarkers","score":0.5528209805488586},{"id":"https://openalex.org/keywords/biomarker-discovery","display_name":"Biomarker discovery","score":0.5206000804901123},{"id":"https://openalex.org/keywords/feature-selection","display_name":"Feature selection","score":0.5191578269004822},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5185778141021729},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.5167297720909119},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.473811537027359},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.45379579067230225},{"id":"https://openalex.org/keywords/biomarker","display_name":"Biomarker","score":0.44524073600769043},{"id":"https://openalex.org/keywords/lung-cancer","display_name":"Lung cancer","score":0.43062150478363037},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4079475998878479},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3876647651195526},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.385390043258667},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.311551034450531},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.26969343423843384},{"id":"https://openalex.org/keywords/oncology","display_name":"Oncology","score":0.24796608090400696},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.22700929641723633},{"id":"https://openalex.org/keywords/proteomics","display_name":"Proteomics","score":0.16213205456733704},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.12342521548271179},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1033831238746643}],"concepts":[{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.6523575782775879},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.5805338621139526},{"id":"https://openalex.org/C2777002142","wikidata":"https://www.wikidata.org/wiki/Q5031432","display_name":"Cancer biomarkers","level":3,"score":0.5528209805488586},{"id":"https://openalex.org/C124535831","wikidata":"https://www.wikidata.org/wiki/Q4915074","display_name":"Biomarker discovery","level":4,"score":0.5206000804901123},{"id":"https://openalex.org/C148483581","wikidata":"https://www.wikidata.org/wiki/Q446488","display_name":"Feature selection","level":2,"score":0.5191578269004822},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5185778141021729},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.5167297720909119},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.473811537027359},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.45379579067230225},{"id":"https://openalex.org/C2781197716","wikidata":"https://www.wikidata.org/wiki/Q864574","display_name":"Biomarker","level":2,"score":0.44524073600769043},{"id":"https://openalex.org/C2776256026","wikidata":"https://www.wikidata.org/wiki/Q47912","display_name":"Lung cancer","level":2,"score":0.43062150478363037},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4079475998878479},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3876647651195526},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.385390043258667},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.311551034450531},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.26969343423843384},{"id":"https://openalex.org/C143998085","wikidata":"https://www.wikidata.org/wiki/Q162555","display_name":"Oncology","level":1,"score":0.24796608090400696},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.22700929641723633},{"id":"https://openalex.org/C46111723","wikidata":"https://www.wikidata.org/wiki/Q471857","display_name":"Proteomics","level":3,"score":0.16213205456733704},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.12342521548271179},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1033831238746643}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/3233547.3233619","is_oa":false,"landing_page_url":"https://doi.org/10.1145/3233547.3233619","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 2018 ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being","score":0.5600000023841858}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W2943300910","https://openalex.org/W3028106195","https://openalex.org/W4377043188","https://openalex.org/W1992520653","https://openalex.org/W2154438952","https://openalex.org/W4300922152","https://openalex.org/W23749647","https://openalex.org/W4367626206","https://openalex.org/W2323382003","https://openalex.org/W2076819344"],"abstract_inverted_index":{"Understanding":[0],"the":[1,25,30,60,91,107,141,149,154,167,175,186],"molecular":[2,129],"mechanisms":[3],"underlying":[4],"early":[5,34,101,118,127,157,178,187],"cancer":[6,35,70,102,128,134,158,170,179,188],"development":[7],"is":[8],"still":[9],"a":[10,38,136],"challenge.":[11],"To":[12],"address":[13],"this,":[14],"we":[15,40,98,139,173],"developed":[16],"an":[17],"interpretable,":[18],"data-driven":[19],"machine":[20,94],"learning":[21,95],"approach":[22,43],"to":[23,50,90,147],"identify":[24,148],"gene":[26,62],"biomarkers":[27,64,108],"that":[28,74,100,122],"predict":[29],"clinical":[31],"outcomes":[32],"of":[33,93,144,156,163,169],"patients.":[36],"As":[37],"demonstration,":[39],"applied":[41],"this":[42,123],"into":[44],"large-scale":[45],"pan-cancer":[46],"datasets":[47],"including":[48],"TCGA":[49],"find":[51],"out":[52],"how":[53],"effective":[54],"it":[55],"would":[56],"be":[57],"at":[58],"identifying":[59],"developmental":[61,150],"expression":[63,155],"across":[65],"tumor":[66],"stages":[67],"for":[68],"various":[69],"types.":[71],"Results":[72],"confirmed":[73],"artificial":[75],"neural":[76,145],"network":[77,146],"prediction":[78],"embedding":[79],"nonlinear":[80],"feature":[81],"selection":[82],"outperforms":[83],"other":[84],"classifiers.":[85],"Moreover,":[86],"and":[87],"more":[88,112],"relevant":[89],"goal":[92],"interpretable":[96],"classifiers,":[97],"found":[99],"patient":[103],"groups":[104],"clustered":[105],"by":[106,117],"selected":[109],"have":[110],"significantly":[111],"survival":[113],"differences":[114],"than":[115],"ones":[116],"TNM":[119],"stages,":[120],"suggesting":[121],"method":[124],"identified":[125],"novel":[126],"biomarkers.":[130],"Furthermore,":[131],"using":[132],"lung":[133],"as":[135],"study":[137],"case,":[138],"leveraged":[140],"hierarchical":[142],"architectures":[143],"regulatory":[151],"networks":[152],"controlling":[153],"biomarkers,":[159,180],"providing":[160],"mechanistic":[161],"insights":[162],"functional":[164],"genomics":[165],"driving":[166],"onset":[168],"development.":[171,189],"Finally,":[172],"reported":[174],"drugs":[176],"targeting":[177],"revealing":[181],"potential":[182],"genomic":[183],"medicine":[184],"affecting":[185]},"counts_by_year":[{"year":2020,"cited_by_count":1}],"updated_date":"2026-07-14T23:27:15.235271","created_date":"2025-10-10T00:00:00"}
