{"id":"https://openalex.org/W2010391389","doi":"https://doi.org/10.1142/s0219720015410024","title":"Predicting essential genes and synthetic lethality via influence propagation in signaling pathways of cancer cell fates","display_name":"Predicting essential genes and synthetic lethality via influence propagation in signaling pathways of cancer cell fates","publication_year":2015,"publication_date":"2015-01-12","ids":{"openalex":"https://openalex.org/W2010391389","doi":"https://doi.org/10.1142/s0219720015410024","mag":"2010391389","pmid":"https://pubmed.ncbi.nlm.nih.gov/25669329"},"language":"en","primary_location":{"id":"doi:10.1142/s0219720015410024","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720015410024","pdf_url":null,"source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Bioinformatics and Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"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/A5101716232","display_name":"Fan Zhang","orcid":"https://orcid.org/0000-0001-8377-0235"},"institutions":[{"id":"https://openalex.org/I172675005","display_name":"Nanyang Technological University","ror":"https://ror.org/02e7b5302","country_code":"SG","type":"education","lineage":["https://openalex.org/I172675005"]}],"countries":["SG"],"is_corresponding":true,"raw_author_name":"Fan Zhang","raw_affiliation_strings":["School of Computer Engineering, Nanyang Technological University, Singapore 639798, Singapore"],"affiliations":[{"raw_affiliation_string":"School of Computer Engineering, Nanyang Technological University, Singapore 639798, Singapore","institution_ids":["https://openalex.org/I172675005"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100340964","display_name":"Min Wu","orcid":"https://orcid.org/0000-0003-0977-3600"},"institutions":[{"id":"https://openalex.org/I115228651","display_name":"Agency for Science, Technology and Research","ror":"https://ror.org/036wvzt09","country_code":"SG","type":"government","lineage":["https://openalex.org/I115228651"]},{"id":"https://openalex.org/I3005327000","display_name":"Institute for Infocomm Research","ror":"https://ror.org/053rfa017","country_code":"SG","type":"facility","lineage":["https://openalex.org/I115228651","https://openalex.org/I3005327000","https://openalex.org/I91275662"]}],"countries":["SG"],"is_corresponding":false,"raw_author_name":"Min Wu","raw_affiliation_strings":["Data Analytic Department, Institute for Infocomm Research, A*STAR, Singapore 138632, Singapore"],"affiliations":[{"raw_affiliation_string":"Data Analytic Department, Institute for Infocomm Research, A*STAR, Singapore 138632, Singapore","institution_ids":["https://openalex.org/I3005327000","https://openalex.org/I115228651"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044746916","display_name":"Xuejuan Li","orcid":"https://orcid.org/0000-0003-4086-6063"},"institutions":[{"id":"https://openalex.org/I115228651","display_name":"Agency for Science, Technology and Research","ror":"https://ror.org/036wvzt09","country_code":"SG","type":"government","lineage":["https://openalex.org/I115228651"]},{"id":"https://openalex.org/I3005327000","display_name":"Institute for Infocomm Research","ror":"https://ror.org/053rfa017","country_code":"SG","type":"facility","lineage":["https://openalex.org/I115228651","https://openalex.org/I3005327000","https://openalex.org/I91275662"]},{"id":"https://openalex.org/I172675005","display_name":"Nanyang Technological University","ror":"https://ror.org/02e7b5302","country_code":"SG","type":"education","lineage":["https://openalex.org/I172675005"]}],"countries":["SG"],"is_corresponding":false,"raw_author_name":"Xue-Juan Li","raw_affiliation_strings":["Data Analytic Department, Institute for Infocomm Research, A*STAR, Singapore 138632, Singapore","School of Computer Engineering, Nanyang Technological University, Singapore 639798, Singapore"],"affiliations":[{"raw_affiliation_string":"Data Analytic Department, Institute for Infocomm Research, A*STAR, Singapore 138632, Singapore","institution_ids":["https://openalex.org/I3005327000","https://openalex.org/I115228651"]},{"raw_affiliation_string":"School of Computer Engineering, Nanyang Technological University, Singapore 639798, Singapore","institution_ids":["https://openalex.org/I172675005"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100418684","display_name":"Xiaoli Li","orcid":"https://orcid.org/0000-0002-0762-6562"},"institutions":[{"id":"https://openalex.org/I172675005","display_name":"Nanyang Technological University","ror":"https://ror.org/02e7b5302","country_code":"SG","type":"education","lineage":["https://openalex.org/I172675005"]},{"id":"https://openalex.org/I3005327000","display_name":"Institute for Infocomm Research","ror":"https://ror.org/053rfa017","country_code":"SG","type":"facility","lineage":["https://openalex.org/I115228651","https://openalex.org/I3005327000","https://openalex.org/I91275662"]},{"id":"https://openalex.org/I115228651","display_name":"Agency for Science, Technology and Research","ror":"https://ror.org/036wvzt09","country_code":"SG","type":"government","lineage":["https://openalex.org/I115228651"]}],"countries":["SG"],"is_corresponding":false,"raw_author_name":"Xiao-Li Li","raw_affiliation_strings":["Data Analytic Department, Institute for Infocomm Research, A*STAR, Singapore 138632, Singapore","School of Computer Engineering, Nanyang Technological University, Singapore 639798, Singapore"],"affiliations":[{"raw_affiliation_string":"Data Analytic Department, Institute for Infocomm Research, A*STAR, Singapore 138632, Singapore","institution_ids":["https://openalex.org/I3005327000","https://openalex.org/I115228651"]},{"raw_affiliation_string":"School of Computer Engineering, Nanyang Technological University, Singapore 639798, Singapore","institution_ids":["https://openalex.org/I172675005"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027208445","display_name":"Chee Keong Kwoh","orcid":"https://orcid.org/0000-0002-8547-6387"},"institutions":[{"id":"https://openalex.org/I172675005","display_name":"Nanyang Technological University","ror":"https://ror.org/02e7b5302","country_code":"SG","type":"education","lineage":["https://openalex.org/I172675005"]}],"countries":["SG"],"is_corresponding":false,"raw_author_name":"Chee Keong Kwoh","raw_affiliation_strings":["School of Computer Engineering, Nanyang Technological University, Singapore 639798, Singapore"],"affiliations":[{"raw_affiliation_string":"School of Computer Engineering, Nanyang Technological University, Singapore 639798, Singapore","institution_ids":["https://openalex.org/I172675005"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5014529529","display_name":"Jie Zheng","orcid":"https://orcid.org/0000-0001-6774-9786"},"institutions":[{"id":"https://openalex.org/I172675005","display_name":"Nanyang Technological University","ror":"https://ror.org/02e7b5302","country_code":"SG","type":"education","lineage":["https://openalex.org/I172675005"]},{"id":"https://openalex.org/I115228651","display_name":"Agency for Science, Technology and Research","ror":"https://ror.org/036wvzt09","country_code":"SG","type":"government","lineage":["https://openalex.org/I115228651"]},{"id":"https://openalex.org/I66068411","display_name":"Genome Institute of Singapore","ror":"https://ror.org/05k8wg936","country_code":"SG","type":"facility","lineage":["https://openalex.org/I115228651","https://openalex.org/I2801752549","https://openalex.org/I66068411"]}],"countries":["SG"],"is_corresponding":false,"raw_author_name":"Jie Zheng","raw_affiliation_strings":["Genome Institute of Singapore, A*STAR, Singapore 138672, Singapore","School of Computer Engineering, Nanyang Technological University, Singapore 639798, Singapore"],"affiliations":[{"raw_affiliation_string":"Genome Institute of Singapore, A*STAR, Singapore 138672, Singapore","institution_ids":["https://openalex.org/I66068411","https://openalex.org/I115228651"]},{"raw_affiliation_string":"School of Computer Engineering, Nanyang Technological University, Singapore 639798, Singapore","institution_ids":["https://openalex.org/I172675005"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5101716232"],"corresponding_institution_ids":["https://openalex.org/I172675005"],"apc_list":null,"apc_paid":null,"fwci":2.0421,"has_fulltext":false,"cited_by_count":27,"citation_normalized_percentile":{"value":0.86677747,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"13","issue":"03","first_page":"1541002","last_page":"1541002"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9995999932289124,"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":0.9995999932289124,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.9980999827384949,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9966999888420105,"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/synthetic-lethality","display_name":"Synthetic lethality","score":0.7997488975524902},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.794713020324707},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5775758624076843},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5754582285881042},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.49947047233581543},{"id":"https://openalex.org/keywords/mutation","display_name":"Mutation","score":0.49237358570098877},{"id":"https://openalex.org/keywords/cancer","display_name":"Cancer","score":0.4536726474761963},{"id":"https://openalex.org/keywords/cancer-cell","display_name":"Cancer cell","score":0.4131753742694855},{"id":"https://openalex.org/keywords/dna-repair","display_name":"DNA repair","score":0.10646256804466248}],"concepts":[{"id":"https://openalex.org/C2778502085","wikidata":"https://www.wikidata.org/wiki/Q7662767","display_name":"Synthetic lethality","level":4,"score":0.7997488975524902},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.794713020324707},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5775758624076843},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5754582285881042},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.49947047233581543},{"id":"https://openalex.org/C501734568","wikidata":"https://www.wikidata.org/wiki/Q42918","display_name":"Mutation","level":3,"score":0.49237358570098877},{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.4536726474761963},{"id":"https://openalex.org/C96232424","wikidata":"https://www.wikidata.org/wiki/Q4118072","display_name":"Cancer cell","level":3,"score":0.4131753742694855},{"id":"https://openalex.org/C134935766","wikidata":"https://www.wikidata.org/wiki/Q210538","display_name":"DNA repair","level":3,"score":0.10646256804466248}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","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":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016923","descriptor_name":"Cell Death","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016923","descriptor_name":"Cell Death","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016923","descriptor_name":"Cell Death","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020043","descriptor_name":"Genes, Essential","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020043","descriptor_name":"Genes, Essential","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020043","descriptor_name":"Genes, Essential","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055785","descriptor_name":"Gene Knockdown Techniques","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D055785","descriptor_name":"Gene Knockdown Techniques","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D055785","descriptor_name":"Gene Knockdown Techniques","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057285","descriptor_name":"Precision Medicine","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057285","descriptor_name":"Precision Medicine","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057285","descriptor_name":"Precision Medicine","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1142/s0219720015410024","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720015410024","pdf_url":null,"source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Bioinformatics and Computational Biology","raw_type":"journal-article"},{"id":"pmid:25669329","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25669329","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":"Journal of bioinformatics and computational biology","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3","score":0.5199999809265137}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":18,"referenced_works":["https://openalex.org/W205856494","https://openalex.org/W1574723537","https://openalex.org/W1972749842","https://openalex.org/W1979803759","https://openalex.org/W2004042953","https://openalex.org/W2017289276","https://openalex.org/W2030813675","https://openalex.org/W2046839020","https://openalex.org/W2050375893","https://openalex.org/W2078444181","https://openalex.org/W2080124756","https://openalex.org/W2123183032","https://openalex.org/W2123758767","https://openalex.org/W2159906261","https://openalex.org/W2161793295","https://openalex.org/W2169980814","https://openalex.org/W2170583315","https://openalex.org/W2417422433"],"related_works":["https://openalex.org/W3093199425","https://openalex.org/W2125327283","https://openalex.org/W1508071893","https://openalex.org/W2980932855","https://openalex.org/W2116506288","https://openalex.org/W2704159227","https://openalex.org/W2887401922","https://openalex.org/W2305985369","https://openalex.org/W2767331778","https://openalex.org/W3172380618"],"abstract_inverted_index":{"A":[0,22,129,182],"major":[1],"goal":[2],"of":[3,42,51,61,78,81,84,102,111,118,131,145],"personalized":[4],"anti-cancer":[5],"therapy":[6],"is":[7,83,133,158],"to":[8,34,46,98,114,126,161],"increase":[9],"the":[10,15,58,76,116,143,162,173],"drug":[11,73],"effects":[12,17],"while":[13,49],"reducing":[14],"side":[16],"as":[18,20,135],"much":[19],"possible.":[21],"novel":[23,184],"therapeutic":[24],"strategy":[25],"called":[26],"synthetic":[27],"lethality":[28],"(SL)":[29],"provides":[30],"a":[31,62,71,95,106],"great":[32,85],"opportunity":[33],"achieve":[35],"this":[36,91],"goal.":[37],"SL":[38,59,79,100,137,175,186],"arises":[39],"if":[40],"mutations":[41],"both":[43],"genes":[44,82,124,132,165],"lead":[45],"cell":[47,127,146],"death":[48,147],"mutation":[50],"either":[52],"single":[53,119,150,155],"gene":[54,63,120,156],"does":[55,152],"not.":[56,153],"Hence,":[57],"partner":[60],"mutated":[64],"only":[65],"in":[66,87],"cancer":[67],"cells":[68],"could":[69],"be":[70],"promising":[72],"target,":[74],"and":[75,122],"identification":[77],"pairs":[80,101],"significance":[86],"pharmaceutical":[88],"industry.":[89],"In":[90],"paper,":[92],"we":[93],"propose":[94],"hybridized":[96],"method":[97],"predict":[99],"genes.":[103],"We":[104],"combine":[105],"data-driven":[107],"model":[108],"with":[109,179],"knowledge":[110],"signalling":[112],"pathways":[113],"simulate":[115],"influence":[117],"knock-down":[121,125,141,151,157],"double":[123,140],"death.":[128],"pair":[130],"considered":[134],"an":[136],"candidate":[138],"when":[139],"increases":[142],"probability":[144],"significantly,":[148],"but":[149],"The":[154],"confirmed":[159],"according":[160],"human":[163],"essential":[164],"database.":[166],"Our":[167],"validation":[168],"against":[169],"literatures":[170],"shows":[171],"that":[172],"predicted":[174,190],"candidates":[176,187],"agree":[177],"well":[178],"wet-lab":[180],"experiments.":[181],"few":[183],"reliable":[185],"are":[188],"also":[189],"by":[191],"our":[192],"model.":[193]},"counts_by_year":[{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":5},{"year":2016,"cited_by_count":5},{"year":2015,"cited_by_count":3}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}