{"id":"https://openalex.org/W4306248185","doi":"https://doi.org/10.1109/tcbb.2022.3214517","title":"A Gene Set-Integrated Approach for Predicting Disease-Associated Genes","display_name":"A Gene Set-Integrated Approach for Predicting Disease-Associated Genes","publication_year":2022,"publication_date":"2022-10-14","ids":{"openalex":"https://openalex.org/W4306248185","doi":"https://doi.org/10.1109/tcbb.2022.3214517","pmid":"https://pubmed.ncbi.nlm.nih.gov/36240041"},"language":"en","primary_location":{"id":"doi:10.1109/tcbb.2022.3214517","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2022.3214517","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043","2998-4165"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","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/A5101819060","display_name":"Hong\u2010Dong Li","orcid":null},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hong-Dong Li","raw_affiliation_strings":["School of Computer Science and Engineering, Central South University, Changsha, Hunan, China","Hunan Provincial Key Lab on Bioinformatics, Central South University, Changsha, Hunan, P.R. China","school of Computer Science and Engineering, Central South University, Changsha, Hunan, P.R. China"],"raw_orcid":"https://orcid.org/0000-0003-3438-739X","affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University, Changsha, Hunan, China","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"Hunan Provincial Key Lab on Bioinformatics, Central South University, Changsha, Hunan, P.R. China","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"school of Computer Science and Engineering, Central South University, Changsha, Hunan, P.R. China","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101822874","display_name":"Chao Deng","orcid":"https://orcid.org/0000-0003-1661-2450"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chao Deng","raw_affiliation_strings":["School of Computer Science and Engineering, Central South University, Changsha, Hunan, China","Hunan Provincial Key Lab on Bioinformatics, Central South University, Changsha, Hunan, P.R. China","school of Computer Science and Engineering, Central South University, Changsha, Hunan, P.R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University, Changsha, Hunan, China","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"Hunan Provincial Key Lab on Bioinformatics, Central South University, Changsha, Hunan, P.R. China","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"school of Computer Science and Engineering, Central South University, Changsha, Hunan, P.R. China","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100755614","display_name":"Xiaoqi Zhang","orcid":"https://orcid.org/0000-0003-0707-0928"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiao-Qi Zhang","raw_affiliation_strings":["School of Computer Science and Engineering, Central South University, Changsha, Hunan, China","Hunan Provincial Key Lab on Bioinformatics, Central South University, Changsha, Hunan, P.R. China","school of Computer Science and Engineering, Central South University, Changsha, Hunan, P.R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University, Changsha, Hunan, China","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"Hunan Provincial Key Lab on Bioinformatics, Central South University, Changsha, Hunan, P.R. China","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"school of Computer Science and Engineering, Central South University, Changsha, Hunan, P.R. China","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5054012280","display_name":"Cuixiang Lin","orcid":null},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Cui-Xiang Lin","raw_affiliation_strings":["School of Computer Science and Engineering, Central South University, Changsha, Hunan, China","Hunan Provincial Key Lab on Bioinformatics, Central South University, Changsha, Hunan, P.R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University, Changsha, Hunan, China","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"Hunan Provincial Key Lab on Bioinformatics, Central South University, Changsha, Hunan, P.R. China","institution_ids":["https://openalex.org/I139660479"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I139660479"],"apc_list":null,"apc_paid":null,"fwci":0.4703,"has_fulltext":false,"cited_by_count":7,"citation_normalized_percentile":{"value":0.58137853,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":98},"biblio":{"volume":"20","issue":"6","first_page":"3440","last_page":"3450"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.996999979019165,"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":0.996999979019165,"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":0.9894999861717224,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9708999991416931,"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/gene","display_name":"Gene","score":0.667433500289917},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5598200559616089},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5456751585006714},{"id":"https://openalex.org/keywords/gene-prediction","display_name":"Gene prediction","score":0.500969648361206},{"id":"https://openalex.org/keywords/feature","display_name":"Feature (linguistics)","score":0.49785804748535156},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.4852283000946045},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.4385402798652649},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.40207499265670776},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.3937772214412689},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3386085629463196},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3231745958328247},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3223097324371338},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.20164993405342102}],"concepts":[{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.667433500289917},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5598200559616089},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5456751585006714},{"id":"https://openalex.org/C105565629","wikidata":"https://www.wikidata.org/wiki/Q1248292","display_name":"Gene prediction","level":4,"score":0.500969648361206},{"id":"https://openalex.org/C2776401178","wikidata":"https://www.wikidata.org/wiki/Q12050496","display_name":"Feature (linguistics)","level":2,"score":0.49785804748535156},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.4852283000946045},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.4385402798652649},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.40207499265670776},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.3937772214412689},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3386085629463196},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3231745958328247},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3223097324371338},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.20164993405342102},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","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}],"mesh":[{"descriptor_ui":"D000067877","descriptor_name":"Autism Spectrum Disorder","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000067877","descriptor_name":"Autism Spectrum Disorder","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000067877","descriptor_name":"Autism Spectrum Disorder","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1109/tcbb.2022.3214517","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2022.3214517","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043","2998-4165"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},{"id":"pmid:36240041","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36240041","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":"IEEE/ACM transactions on computational biology and bioinformatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G5766595311","display_name":null,"funder_award_id":"2022ZD0213700","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"}],"funders":[{"id":"https://openalex.org/F4320335777","display_name":"National Key Research and Development Program of China","ror":null}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":83,"referenced_works":["https://openalex.org/W184793361","https://openalex.org/W1486817521","https://openalex.org/W1527927437","https://openalex.org/W1579711282","https://openalex.org/W1749057191","https://openalex.org/W1981409633","https://openalex.org/W1983487056","https://openalex.org/W1985470174","https://openalex.org/W1999595280","https://openalex.org/W2008627757","https://openalex.org/W2010457001","https://openalex.org/W2025293038","https://openalex.org/W2038122249","https://openalex.org/W2041467022","https://openalex.org/W2051616601","https://openalex.org/W2056683608","https://openalex.org/W2057695174","https://openalex.org/W2061608089","https://openalex.org/W2064086445","https://openalex.org/W2064585235","https://openalex.org/W2092825250","https://openalex.org/W2098427571","https://openalex.org/W2100582962","https://openalex.org/W2105924489","https://openalex.org/W2108994842","https://openalex.org/W2112491890","https://openalex.org/W2116188025","https://openalex.org/W2119043225","https://openalex.org/W2123688186","https://openalex.org/W2125118217","https://openalex.org/W2130410032","https://openalex.org/W2164463031","https://openalex.org/W2214074259","https://openalex.org/W2215874340","https://openalex.org/W2309952293","https://openalex.org/W2341504574","https://openalex.org/W2345316450","https://openalex.org/W2484866312","https://openalex.org/W2506784803","https://openalex.org/W2509721640","https://openalex.org/W2558927549","https://openalex.org/W2568642260","https://openalex.org/W2581719304","https://openalex.org/W2589098519","https://openalex.org/W2591909999","https://openalex.org/W2623056867","https://openalex.org/W2624021832","https://openalex.org/W2779985826","https://openalex.org/W2789285566","https://openalex.org/W2886330399","https://openalex.org/W2890210261","https://openalex.org/W2902626596","https://openalex.org/W2904829642","https://openalex.org/W2912672202","https://openalex.org/W2914852339","https://openalex.org/W2947890742","https://openalex.org/W2949181286","https://openalex.org/W2951097328","https://openalex.org/W2951531839","https://openalex.org/W2955503846","https://openalex.org/W2969366465","https://openalex.org/W2971586943","https://openalex.org/W2977707586","https://openalex.org/W2980441224","https://openalex.org/W3004052817","https://openalex.org/W3004554602","https://openalex.org/W3023903156","https://openalex.org/W3045143113","https://openalex.org/W3093725908","https://openalex.org/W3108155943","https://openalex.org/W3108422627","https://openalex.org/W3116524082","https://openalex.org/W3129170145","https://openalex.org/W3192677404","https://openalex.org/W3203248716","https://openalex.org/W3206417123","https://openalex.org/W3217671076","https://openalex.org/W4200304533","https://openalex.org/W4205329722","https://openalex.org/W4205434388","https://openalex.org/W4205868820","https://openalex.org/W4226385270","https://openalex.org/W6758750616"],"related_works":["https://openalex.org/W3147584709","https://openalex.org/W2977677679","https://openalex.org/W1992327129","https://openalex.org/W2381986121","https://openalex.org/W2370918718","https://openalex.org/W2256933480","https://openalex.org/W2370081953","https://openalex.org/W2027854990","https://openalex.org/W2364428742","https://openalex.org/W2085397571"],"abstract_inverted_index":{"It":[0,90,113],"is":[1,46,150],"important":[2],"to":[3,74,123,152],"identify":[4],"disease-associated":[5,76],"genes":[6,77,139],"for":[7,17,140],"studying":[8],"the":[9,52,85,95,103,107,110,116,120,125,177],"pathogenic":[10],"mechanism":[11],"of":[12,43,54,64,98,109,180],"complex":[13,142],"diseases.":[14,143],"Recently,":[15],"models":[16],"disease":[18,126],"gene":[19,31,56,81,100,121,127],"prediction":[20,128,190],"are":[21,171,194],"dominantly":[22],"based":[23,175],"on":[24,161,176,197],"molecular":[25],"expression":[26],"data":[27,83],"and":[28,93,183,192],"networks,":[29,36,39],"including":[30],"expression,":[32,34],"protein":[33],"co-expression":[35],"protein-protein":[37],"interaction":[38],"etc.":[40],"One":[41],"limitation":[42],"these":[44],"methods":[45,136],"that":[47,147,168],"they":[48],"do":[49],"not":[50],"consider":[51],"knowledge":[53],"annotated":[55,80,99],"sets":[57,63,82,101],"representing":[58],"known":[59],"pathways":[60],"or":[61],"functionally-related":[62],"genes.":[65],"In":[66],"this":[67],"study,":[68],"we":[69,156],"propose":[70],"a":[71,158],"new":[72],"approach":[73],"predict":[75],"by":[78],"integrating":[79],"from":[84],"Molecular":[86],"Signature":[87],"Database":[88],"(MSigDB).":[89],"first":[91],"represents":[92],"integrates":[94],"different":[96],"types":[97],"in":[102,106,137],"MSigDB":[104],"database":[105],"form":[108],"signal":[111,117],"matrix.":[112],"then":[114],"uses":[115],"matrix":[118],"as":[119],"feature":[122],"train":[124],"model.":[129],"We":[130,166],"compare":[131],"our":[132,148],"method":[133,149],"with":[134,173],"existing":[135],"predicting":[138],"five":[141],"The":[144,187],"results":[145,191],"show":[146],"superior":[151],"other":[153],"methods.":[154],"Further,":[155],"perform":[157],"case":[159],"study":[160],"autism":[162],"spectrum":[163],"disorder":[164],"(ASD).":[165],"find":[167],"ASD":[169,174,185],"predictions":[170],"associated":[172],"statistical":[178],"analysis":[179],"biological":[181],"networks":[182],"independent":[184],"studies.":[186],"source":[188],"code,":[189],"datasets":[193],"publicly":[195],"available":[196],"https://github.com/genemine/GSI.git.":[198]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":2}],"updated_date":"2026-07-29T09:40:50.615796","created_date":"2025-10-10T00:00:00"}
