{"id":"https://openalex.org/W4388479092","doi":"https://doi.org/10.1145/3608164.3608171","title":"Inference of Synthetically Lethal Pairs of Genes Involved in Metastatic Processes via Non-Negative Matrix Tri-Factorization","display_name":"Inference of Synthetically Lethal Pairs of Genes Involved in Metastatic Processes via Non-Negative Matrix Tri-Factorization","publication_year":2023,"publication_date":"2023-05-26","ids":{"openalex":"https://openalex.org/W4388479092","doi":"https://doi.org/10.1145/3608164.3608171"},"language":"en","primary_location":{"id":"doi:10.1145/3608164.3608171","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3608164.3608171","pdf_url":null,"source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 2023 15th International Conference on Bioinformatics and Biomedical Technology","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1145/3608164.3608171","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5009015214","display_name":"Carolina Testa","orcid":"https://orcid.org/0000-0002-6059-0204"},"institutions":[{"id":"https://openalex.org/I93860229","display_name":"Politecnico di Milano","ror":"https://ror.org/01nffqt88","country_code":"IT","type":"education","lineage":["https://openalex.org/I93860229"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Carolina Testa","raw_affiliation_strings":["Dipartimento di Elettronica, Informazione e Bioingegneria (DEIB), Politecnico di Milano, Italy and Dipartimento di Chimica, Materiali e Ingegneria Chimica, Politecnico di Milano, Italy"],"raw_orcid":"https://orcid.org/0000-0002-6059-0204","affiliations":[{"raw_affiliation_string":"Dipartimento di Elettronica, Informazione e Bioingegneria (DEIB), Politecnico di Milano, Italy and Dipartimento di Chimica, Materiali e Ingegneria Chimica, Politecnico di Milano, Italy","institution_ids":["https://openalex.org/I93860229"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070585954","display_name":"Sara Pid\u00f2","orcid":"https://orcid.org/0000-0003-1425-1719"},"institutions":[{"id":"https://openalex.org/I93860229","display_name":"Politecnico di Milano","ror":"https://ror.org/01nffqt88","country_code":"IT","type":"education","lineage":["https://openalex.org/I93860229"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Sara Pid\u00f2","raw_affiliation_strings":["Dipartimento di Elettronica, Informazione e Bioingegneria (DEIB), Politecnico di Milano, Italy"],"raw_orcid":"https://orcid.org/0000-0003-1425-1719","affiliations":[{"raw_affiliation_string":"Dipartimento di Elettronica, Informazione e Bioingegneria (DEIB), Politecnico di Milano, Italy","institution_ids":["https://openalex.org/I93860229"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045396260","display_name":"Emanuela Jacchetti","orcid":"https://orcid.org/0000-0001-5990-001X"},"institutions":[{"id":"https://openalex.org/I93860229","display_name":"Politecnico di Milano","ror":"https://ror.org/01nffqt88","country_code":"IT","type":"education","lineage":["https://openalex.org/I93860229"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Emanuela Jacchetti","raw_affiliation_strings":["Dipartimento di Chimica, Materiali e Ingegneria Chimica, Politecnico di Milano, Italy"],"raw_orcid":"https://orcid.org/0000-0001-5990-001X","affiliations":[{"raw_affiliation_string":"Dipartimento di Chimica, Materiali e Ingegneria Chimica, Politecnico di Milano, Italy","institution_ids":["https://openalex.org/I93860229"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063258316","display_name":"Manuela Teresa Raimondi","orcid":"https://orcid.org/0000-0003-2585-7206"},"institutions":[{"id":"https://openalex.org/I93860229","display_name":"Politecnico di Milano","ror":"https://ror.org/01nffqt88","country_code":"IT","type":"education","lineage":["https://openalex.org/I93860229"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Manuela Teresa Raimondi","raw_affiliation_strings":["Dipartimento di Chimica, Materiali e Ingegneria Chimica, Politecnico di Milano, Italy"],"raw_orcid":"https://orcid.org/0000-0003-2585-7206","affiliations":[{"raw_affiliation_string":"Dipartimento di Chimica, Materiali e Ingegneria Chimica, Politecnico di Milano, Italy","institution_ids":["https://openalex.org/I93860229"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5048332811","display_name":"Stefano Ceri","orcid":"https://orcid.org/0000-0003-0671-2415"},"institutions":[{"id":"https://openalex.org/I93860229","display_name":"Politecnico di Milano","ror":"https://ror.org/01nffqt88","country_code":"IT","type":"education","lineage":["https://openalex.org/I93860229"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Stefano Ceri","raw_affiliation_strings":["Dipartimento di Elettronica, Informazione e Bioingegneria (DEIB), Politecnico di Milano, Italy"],"raw_orcid":"https://orcid.org/0000-0003-0671-2415","affiliations":[{"raw_affiliation_string":"Dipartimento di Elettronica, Informazione e Bioingegneria (DEIB), Politecnico di Milano, Italy","institution_ids":["https://openalex.org/I93860229"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5074094001","display_name":"Pietro Pinoli","orcid":"https://orcid.org/0000-0001-9786-2851"},"institutions":[{"id":"https://openalex.org/I93860229","display_name":"Politecnico di Milano","ror":"https://ror.org/01nffqt88","country_code":"IT","type":"education","lineage":["https://openalex.org/I93860229"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Pietro Pinoli","raw_affiliation_strings":["Dipartimento di Elettronica, Informazione e Bioingegneria (DEIB), Politecnico di Milano, Italy"],"raw_orcid":"https://orcid.org/0000-0001-9786-2851","affiliations":[{"raw_affiliation_string":"Dipartimento di Elettronica, Informazione e Bioingegneria (DEIB), Politecnico di Milano, Italy","institution_ids":["https://openalex.org/I93860229"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5009015214"],"corresponding_institution_ids":["https://openalex.org/I93860229"],"apc_list":null,"apc_paid":null,"fwci":0.5998,"has_fulltext":false,"cited_by_count":4,"citation_normalized_percentile":{"value":0.70692467,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":null,"issue":null,"first_page":"47","last_page":"53"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9990000128746033,"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":0.9990000128746033,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9979000091552734,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9912999868392944,"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/matrix-decomposition","display_name":"Matrix decomposition","score":0.7261651158332825},{"id":"https://openalex.org/keywords/inference","display_name":"Inference","score":0.7032122015953064},{"id":"https://openalex.org/keywords/metric","display_name":"Metric (unit)","score":0.6577540040016174},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6245818138122559},{"id":"https://openalex.org/keywords/factorization","display_name":"Factorization","score":0.5402891039848328},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.46830475330352783},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.4613634943962097},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.41164663434028625},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.3783877491950989},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3038572669029236},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.281291663646698},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1827664077281952},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.08379924297332764}],"concepts":[{"id":"https://openalex.org/C42355184","wikidata":"https://www.wikidata.org/wiki/Q1361088","display_name":"Matrix decomposition","level":3,"score":0.7261651158332825},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.7032122015953064},{"id":"https://openalex.org/C176217482","wikidata":"https://www.wikidata.org/wiki/Q860554","display_name":"Metric (unit)","level":2,"score":0.6577540040016174},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6245818138122559},{"id":"https://openalex.org/C187834632","wikidata":"https://www.wikidata.org/wiki/Q188804","display_name":"Factorization","level":2,"score":0.5402891039848328},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.46830475330352783},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.4613634943962097},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.41164663434028625},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.3783877491950989},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3038572669029236},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.281291663646698},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1827664077281952},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.08379924297332764},{"id":"https://openalex.org/C21547014","wikidata":"https://www.wikidata.org/wiki/Q1423657","display_name":"Operations management","level":1,"score":0.0},{"id":"https://openalex.org/C158693339","wikidata":"https://www.wikidata.org/wiki/Q190524","display_name":"Eigenvalues and eigenvectors","level":2,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1145/3608164.3608171","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3608164.3608171","pdf_url":null,"source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 2023 15th International Conference on Bioinformatics and Biomedical Technology","raw_type":"proceedings-article"},{"id":"pmh:oai:re.public.polimi.it:11311/1264717","is_oa":true,"landing_page_url":"https://dl.acm.org/doi/10.1145/3608164.3608171","pdf_url":null,"source":{"id":"https://openalex.org/S4306400312","display_name":"Virtual Community of Pathological Anatomy (University of Castilla La Mancha)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I79189158","host_organization_name":"University of Castilla-La Mancha","host_organization_lineage":["https://openalex.org/I79189158"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/bookPart"}],"best_oa_location":{"id":"doi:10.1145/3608164.3608171","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3608164.3608171","pdf_url":null,"source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 2023 15th International Conference on Bioinformatics and Biomedical Technology","raw_type":"proceedings-article"},"sustainable_development_goals":[{"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3","score":0.6000000238418579}],"awards":[{"id":"https://openalex.org/G8535082021","display_name":null,"funder_award_id":"G.A. 101053122","funder_id":"https://openalex.org/F4320334678","funder_display_name":"European Research Council"}],"funders":[{"id":"https://openalex.org/F4320334678","display_name":"European Research Council","ror":"https://ror.org/0472cxd90"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":21,"referenced_works":["https://openalex.org/W2010457001","https://openalex.org/W2043545458","https://openalex.org/W2045953361","https://openalex.org/W2279299471","https://openalex.org/W2472733817","https://openalex.org/W2704159227","https://openalex.org/W2896465451","https://openalex.org/W2902384546","https://openalex.org/W2952332592","https://openalex.org/W2990747402","https://openalex.org/W3022121690","https://openalex.org/W3082138527","https://openalex.org/W3093053585","https://openalex.org/W3093199425","https://openalex.org/W3106811464","https://openalex.org/W3136876771","https://openalex.org/W3137288611","https://openalex.org/W3175303525","https://openalex.org/W3203777534","https://openalex.org/W3211402536","https://openalex.org/W4312665574"],"related_works":["https://openalex.org/W2794559785","https://openalex.org/W1754499339","https://openalex.org/W2013873776","https://openalex.org/W2055243143","https://openalex.org/W2950281908","https://openalex.org/W2963117165","https://openalex.org/W2084977674","https://openalex.org/W2583828359","https://openalex.org/W1973739845","https://openalex.org/W119752240"],"abstract_inverted_index":{"Metastases":[0],"formation":[1],"dramatically":[2],"represents":[3],"the":[4,24,27,34,46,71,98,110,124,132,161,169,182,190,193,204,216],"most":[5,133],"widespread":[6],"cause":[7],"of":[8,29,36,49,56,64,74,100,112,145,186,192,211],"cancer-related":[9],"deaths;":[10],"to":[11,19,70,97,128],"date,":[12],"however,":[13],"few":[14],"agents":[15],"are":[16],"specifically":[17],"designed":[18],"contrast":[20],"this":[21,50,198],"phenomenon.":[22],"In":[23,197],"last":[25],"years,":[26],"concept":[28],"synthetic":[30],"lethality":[31],"(SL)":[32],"for":[33,88],"design":[35],"new":[37],"therapies":[38],"has":[39],"been":[40],"effectively":[41],"analysed":[42],"and":[43,92,120],"exploited.":[44],"For":[45],"proper":[47],"employment":[48],"concept,":[51],"a":[52],"reliable":[53],"computational":[54],"identification":[55],"genetic":[57],"SL":[58,102,135,195,208],"pairs":[59],"is":[60,67,81,107,126,151],"required;":[61],"massive":[62],"use":[63],"laboratory-based":[65],"methods":[66],"unfeasible":[68],"due":[69],"huge":[72],"number":[73],"possible":[75],"gene":[76,103,175],"combinations.":[77],"Non-Negative":[78],"Matrix":[79],"Tri-Factorization":[80],"emerging":[82],"as":[83],"an":[84,113],"effective":[85,152],"prediction":[86,170],"method":[87,106,125,150,205],"inferring":[89,154],"gene-to-gene":[90],"relationships,":[91],"we":[93,157,166,178,201],"hereby":[94],"apply":[95],"it":[96],"inference":[99],"unknown":[101],"pairs.":[104],"The":[105],"based":[108],"on":[109,189],"decomposition":[111],"association":[114],"matrices":[115,119,188],"in":[116,153,168,181],"three":[117],"non-negative":[118],"their":[121],"reconstruction.":[122],"Here,":[123],"applied":[127],"data":[129],"from":[130],"SynLethDB,":[131],"complete":[134],"dataset,":[136],"projected":[137],"over":[138],"metastatic":[139],"genes.":[140],"We":[141],"show,":[142],"by":[143,184,215],"means":[144,185],"classical":[146],"indicators,":[147],"that":[148,160,177,203],"he":[149],"unseen":[155],"pairs;":[156],"also":[158,171],"demonstrate":[159],"evaluation":[162],"metric":[163],"raises":[164],"when":[165],"include":[167,180],"other":[172],"datasets":[173],"describing":[174],"features,":[176],"properly":[179],"computation":[183],"additional":[187],"side":[191],"main":[194],"one.":[196],"enhanced":[199],"setting,":[200],"show":[202],"infers":[206],"novel":[207],"pairs,":[209],"some":[210],"which":[212],"independently":[213],"supported":[214],"literature.":[217]},"counts_by_year":[{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":1}],"updated_date":"2026-03-27T05:58:40.876381","created_date":"2025-10-10T00:00:00"}
