{"id":"https://openalex.org/W4406947663","doi":"https://doi.org/10.1109/access.2025.3535999","title":"Integrating Data Mining, Deep Learning, and Gene Ontology Analysis for Gene Expression-Based Disease Diagnosis Systems","display_name":"Integrating Data Mining, Deep Learning, and Gene Ontology Analysis for Gene Expression-Based Disease Diagnosis Systems","publication_year":2025,"publication_date":"2025-01-01","ids":{"openalex":"https://openalex.org/W4406947663","doi":"https://doi.org/10.1109/access.2025.3535999"},"language":"en","primary_location":{"id":"doi:10.1109/access.2025.3535999","is_oa":true,"landing_page_url":"https://doi.org/10.1109/access.2025.3535999","pdf_url":null,"source":{"id":"https://openalex.org/S2485537415","display_name":"IEEE Access","issn_l":"2169-3536","issn":["2169-3536"],"is_oa":true,"is_in_doaj":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Access","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1109/access.2025.3535999","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5076340310","display_name":"Sergii Babichev","orcid":"https://orcid.org/0000-0001-6797-1467"},"institutions":[{"id":"https://openalex.org/I882086214","display_name":"Kherson State University","ror":"https://ror.org/04cbe1f31","country_code":"UA","type":"education","lineage":["https://openalex.org/I882086214"]}],"countries":["UA"],"is_corresponding":false,"raw_author_name":"Sergii Babichev","raw_affiliation_strings":["Department of Physics, Kherson State University, Kherson, Ukraine","Department of Physics, Kherson State University, University str, 17, Kherson, Ukraine"],"raw_orcid":"https://orcid.org/0000-0001-6797-1467","affiliations":[{"raw_affiliation_string":"Department of Physics, Kherson State University, Kherson, Ukraine","institution_ids":["https://openalex.org/I882086214"]},{"raw_affiliation_string":"Department of Physics, Kherson State University, University str, 17, Kherson, Ukraine","institution_ids":["https://openalex.org/I882086214"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021141455","display_name":"Ihor Liakh","orcid":"https://orcid.org/0000-0001-5417-9403"},"institutions":[{"id":"https://openalex.org/I77443782","display_name":"Uzhhorod National University","ror":"https://ror.org/01x3jjv63","country_code":"UA","type":"education","lineage":["https://openalex.org/I77443782"]}],"countries":["UA"],"is_corresponding":false,"raw_author_name":"Igor Liakh","raw_affiliation_strings":["Department of Information Science, Physics and Mathematics Disciplines, Uzhhorod National University, Uzhhorod, Ukraine","Department of Information Science and Physics and Mathematics Disciplines, Uzhorod National University, Zankovetskoi str., 89a, Uzhorod, Ukraine"],"raw_orcid":"https://orcid.org/0000-0001-5417-9403","affiliations":[{"raw_affiliation_string":"Department of Information Science, Physics and Mathematics Disciplines, Uzhhorod National University, Uzhhorod, Ukraine","institution_ids":["https://openalex.org/I77443782"]},{"raw_affiliation_string":"Department of Information Science and Physics and Mathematics Disciplines, Uzhorod National University, Zankovetskoi str., 89a, Uzhorod, Ukraine","institution_ids":["https://openalex.org/I77443782"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5071395105","display_name":"Ji\u0159\u0131\u0301 \u0160kvor","orcid":"https://orcid.org/0000-0001-5724-0759"},"institutions":[{"id":"https://openalex.org/I3122934890","display_name":"Jan Evangelista Purkyn\u011b University in \u00dast\u00ed nad Labem","ror":"https://ror.org/04vjwcp92","country_code":"CZ","type":"education","lineage":["https://openalex.org/I3122934890"]}],"countries":["CZ"],"is_corresponding":false,"raw_author_name":"Ji\u0159\u00ed \u0160kvor","raw_affiliation_strings":["Department of Informatics, Jan Evangelista Purkyne University in Usti nad Labem, Usti nad labem, Czech Republic","Department of Informatics, Jan Evangelista Purkyne University in Usti nad Labem, Pasteurova 15, Usti nad labem, Czech Repablic"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Informatics, Jan Evangelista Purkyne University in Usti nad Labem, Usti nad labem, Czech Republic","institution_ids":["https://openalex.org/I3122934890"]},{"raw_affiliation_string":"Department of Informatics, Jan Evangelista Purkyne University in Usti nad Labem, Pasteurova 15, Usti nad labem, Czech Repablic","institution_ids":["https://openalex.org/I3122934890"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":1850,"currency":"USD","value_usd":1850},"apc_paid":{"value":1850,"currency":"USD","value_usd":1850},"fwci":1.7279,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":{"value":0.82050159,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":96,"max":97},"biblio":{"volume":"13","issue":null,"first_page":"21265","last_page":"21278"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9431999921798706,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9431999921798706,"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/computer-science","display_name":"Computer science","score":0.6760315895080566},{"id":"https://openalex.org/keywords/gene-ontology","display_name":"Gene ontology","score":0.5616299510002136},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.47689464688301086},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4578198194503784},{"id":"https://openalex.org/keywords/disease","display_name":"Disease","score":0.4570477306842804},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.4378819465637207},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4241524934768677},{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.4180028438568115},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3783312439918518},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.16345077753067017},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1539355218410492},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.11323076486587524}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6760315895080566},{"id":"https://openalex.org/C2987395477","wikidata":"https://www.wikidata.org/wiki/Q135085","display_name":"Gene ontology","level":4,"score":0.5616299510002136},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.47689464688301086},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4578198194503784},{"id":"https://openalex.org/C2779134260","wikidata":"https://www.wikidata.org/wiki/Q12136","display_name":"Disease","level":2,"score":0.4570477306842804},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.4378819465637207},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4241524934768677},{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.4180028438568115},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3783312439918518},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.16345077753067017},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1539355218410492},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.11323076486587524},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1109/access.2025.3535999","is_oa":true,"landing_page_url":"https://doi.org/10.1109/access.2025.3535999","pdf_url":null,"source":{"id":"https://openalex.org/S2485537415","display_name":"IEEE Access","issn_l":"2169-3536","issn":["2169-3536"],"is_oa":true,"is_in_doaj":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Access","raw_type":"journal-article"},{"id":"pmh:oai:doaj.org/article:0da980f8076e4bd198ca97a01347b587","is_oa":true,"landing_page_url":"https://doaj.org/article/0da980f8076e4bd198ca97a01347b587","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"IEEE Access, Vol 13, Pp 21265-21278 (2025)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1109/access.2025.3535999","is_oa":true,"landing_page_url":"https://doi.org/10.1109/access.2025.3535999","pdf_url":null,"source":{"id":"https://openalex.org/S2485537415","display_name":"IEEE Access","issn_l":"2169-3536","issn":["2169-3536"],"is_oa":true,"is_in_doaj":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Access","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":27,"referenced_works":["https://openalex.org/W2010150441","https://openalex.org/W2040613244","https://openalex.org/W2092939357","https://openalex.org/W2097632269","https://openalex.org/W2102117809","https://openalex.org/W2146026944","https://openalex.org/W2768566638","https://openalex.org/W2809045422","https://openalex.org/W2897271949","https://openalex.org/W2968912020","https://openalex.org/W3008517864","https://openalex.org/W3014321973","https://openalex.org/W3036962145","https://openalex.org/W3203574418","https://openalex.org/W3207033214","https://openalex.org/W4213251304","https://openalex.org/W4242249840","https://openalex.org/W4295847186","https://openalex.org/W4298137411","https://openalex.org/W4318478374","https://openalex.org/W4385611585","https://openalex.org/W4389266053","https://openalex.org/W4390233470","https://openalex.org/W4390499130","https://openalex.org/W4390749542","https://openalex.org/W4391247498","https://openalex.org/W6629329278"],"related_works":["https://openalex.org/W2003333417","https://openalex.org/W2378862226","https://openalex.org/W118236634","https://openalex.org/W2355326633","https://openalex.org/W2804669904","https://openalex.org/W2149777447","https://openalex.org/W2347456287","https://openalex.org/W2121651557","https://openalex.org/W2782969047","https://openalex.org/W2794019507"],"abstract_inverted_index":{"The":[0,71,119,198],"manuscript":[1],"details":[2],"the":[3,10,53,64,81,84,113,125,129,136,177,192,212,221],"outcomes":[4],"of":[5,12,52,68,83,121,128,138,214,223],"a":[6,44,49],"comprehensive":[7],"study":[8],"on":[9],"application":[11,82],"cluster-bicluster":[13,148],"analysis,":[14,17,78,176],"gene":[15,30,58,76,92,178],"ontology":[16,77],"and":[18,26,39,47,66,101,158,171,188,194,206],"convolutional":[19],"neural":[20],"network":[21],"(CNN)":[22],"for":[23,56,90,98,103,116,133,164,201,227],"diagnosing":[24],"cancer":[25,174],"Alzheimer\u2019s":[27,134],"disease":[28,69],"using":[29],"expression":[31,59,93],"data":[32,99,152,175],"derived":[33],"from":[34,143,182],"both":[35],"DNA":[36],"microarray":[37],"experiments":[38],"mRNA":[40],"sequencing.":[41],"It":[42],"outlines":[43],"conceptual":[45],"framework":[46],"provides":[48],"block":[50],"diagram":[51],"stepwise":[54],"procedure":[55],"analyzing":[57],"data,":[60,135],"aiming":[61],"to":[62,111,145,184,218],"enhance":[63],"accuracy":[65,163,200],"objectivity":[67],"diagnosis.":[70],"research":[72],"methodology":[73],"involves":[74],"initial":[75],"followed":[79],"by":[80],"Self":[85],"Organizing":[86],"Tree":[87],"Algorithm":[88],"(SOTA)":[89],"clustering":[91],"profiles,":[94],"an":[95],"ensemble":[96],"algorithm":[97],"biclustering,":[100],"CNN":[102],"sample":[104],"classification.":[105],"Bayesian":[106],"optimization":[107],"method":[108],"was":[109,141,180,204],"employed":[110],"determine":[112],"optimal":[114],"hyperparameters":[115],"all":[117],"models.":[118],"analysis":[120,149],"simulation":[122],"results":[123],"demonstrates":[124],"high":[126],"efficacy":[127,222],"proposed":[130],"approach.":[131],"Specifically,":[132],"number":[137],"genes":[139,190],"analyzed":[140],"reduced":[142,181],"44,662":[144],"4,004.":[146],"Subsequent":[147],"divided":[150],"this":[151,215],"into":[153],"two":[154],"subsets":[155,168,203],"containing":[156],"1,158":[157],"2,846":[159],"genes,":[160],"respectively.":[161,197,208],"Classification":[162],"samples":[165],"within":[166],"these":[167,202],"reached":[169],"89.8%":[170],"91.8%.":[172],"In":[173],"count":[179],"60,660":[183],"10,422,":[185],"with":[186],"3,955":[187],"6,467":[189],"in":[191],"first":[193],"second":[195],"clusters,":[196],"classification":[199],"97.4%":[205],"97.6%,":[207],"To":[209],"our":[210],"mind,":[211],"implementation":[213],"model":[216],"promises":[217],"significantly":[219],"improve":[220],"early":[224],"diagnosis":[225],"systems":[226],"complex":[228],"diseases.":[229]},"counts_by_year":[{"year":2025,"cited_by_count":3}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
