{"id":"https://openalex.org/W4400341608","doi":"https://doi.org/10.1142/s0219720024500185","title":"An ensemble approach for circular RNA-disease association prediction using variational autoencoder and genetic algorithm","display_name":"An ensemble approach for circular RNA-disease association prediction using variational autoencoder and genetic algorithm","publication_year":2024,"publication_date":"2024-07-05","ids":{"openalex":"https://openalex.org/W4400341608","doi":"https://doi.org/10.1142/s0219720024500185","pmid":"https://pubmed.ncbi.nlm.nih.gov/39215523"},"language":"en","primary_location":{"id":"doi:10.1142/s0219720024500185","is_oa":false,"landing_page_url":"http://dx.doi.org/10.1142/s0219720024500185","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/A5100019024","display_name":"C. M. Salooja","orcid":null},"institutions":[{"id":"https://openalex.org/I20497027","display_name":"Cochin University of Science and Technology","ror":"https://ror.org/00a4kqq17","country_code":"IN","type":"education","lineage":["https://openalex.org/I20497027"]}],"countries":["IN"],"is_corresponding":true,"raw_author_name":"C. M. Salooja","raw_affiliation_strings":["Bioinformatics Lab, Department of Computer Science, Cochin University of Science and Technology, Kerala-682022, India"],"raw_orcid":"https://orcid.org/0009-0000-9241-7425","affiliations":[{"raw_affiliation_string":"Bioinformatics Lab, Department of Computer Science, Cochin University of Science and Technology, Kerala-682022, India","institution_ids":["https://openalex.org/I20497027"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090167562","display_name":"Arjun Sanker","orcid":null},"institutions":[{"id":"https://openalex.org/I20497027","display_name":"Cochin University of Science and Technology","ror":"https://ror.org/00a4kqq17","country_code":"IN","type":"education","lineage":["https://openalex.org/I20497027"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Arjun Sanker","raw_affiliation_strings":["Bioinformatics Lab, Department of Computer Science, Cochin University of Science and Technology, Kerala-682022, India"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Lab, Department of Computer Science, Cochin University of Science and Technology, Kerala-682022, India","institution_ids":["https://openalex.org/I20497027"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101546365","display_name":"K. Deepthi","orcid":"https://orcid.org/0000-0001-6388-0103"},"institutions":[{"id":"https://openalex.org/I35340524","display_name":"Central University of Kerala","ror":"https://ror.org/00cy1zs35","country_code":"IN","type":"education","lineage":["https://openalex.org/I35340524"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"K. Deepthi","raw_affiliation_strings":["Department of Computer Science, Central University of Kerala (Central Govt. of India), Kerala-671316, India"],"raw_orcid":"https://orcid.org/0000-0001-6388-0103","affiliations":[{"raw_affiliation_string":"Department of Computer Science, Central University of Kerala (Central Govt. of India), Kerala-671316, India","institution_ids":["https://openalex.org/I35340524"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5048259683","display_name":"A. S. Jereesh","orcid":null},"institutions":[{"id":"https://openalex.org/I20497027","display_name":"Cochin University of Science and Technology","ror":"https://ror.org/00a4kqq17","country_code":"IN","type":"education","lineage":["https://openalex.org/I20497027"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"A. S. Jereesh","raw_affiliation_strings":["Bioinformatics Lab, Department of Computer Science, Cochin University of Science and Technology, Kerala-682022, India"],"raw_orcid":"https://orcid.org/0000-0001-6371-1991","affiliations":[{"raw_affiliation_string":"Bioinformatics Lab, Department of Computer Science, Cochin University of Science and Technology, Kerala-682022, India","institution_ids":["https://openalex.org/I20497027"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5100019024"],"corresponding_institution_ids":["https://openalex.org/I20497027"],"apc_list":null,"apc_paid":null,"fwci":0.4221,"has_fulltext":false,"cited_by_count":2,"citation_normalized_percentile":{"value":0.62239266,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":98,"max":99},"biblio":{"volume":"22","issue":"04","first_page":"2450018","last_page":"2450018"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11765","display_name":"Circular RNAs in diseases","score":0.9998999834060669,"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/T11765","display_name":"Circular RNAs in diseases","score":0.9998999834060669,"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/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.9976000189781189,"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/T10062","display_name":"MicroRNA in disease regulation","score":0.949999988079071,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/autoencoder","display_name":"Autoencoder","score":0.8543687462806702},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.558535099029541},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.44244688749313354},{"id":"https://openalex.org/keywords/association","display_name":"Association (psychology)","score":0.4276261627674103},{"id":"https://openalex.org/keywords/circular-rna","display_name":"Circular RNA","score":0.4201132655143738},{"id":"https://openalex.org/keywords/genetic-algorithm","display_name":"Genetic algorithm","score":0.4125225245952606},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3903144896030426},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.385315477848053},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.3705892562866211},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.32471930980682373},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2757951617240906},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2681383490562439},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.2655782997608185},{"id":"https://openalex.org/keywords/artificial-neural-network","display_name":"Artificial neural network","score":0.21986344456672668},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.14514413475990295}],"concepts":[{"id":"https://openalex.org/C101738243","wikidata":"https://www.wikidata.org/wiki/Q786435","display_name":"Autoencoder","level":3,"score":0.8543687462806702},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.558535099029541},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.44244688749313354},{"id":"https://openalex.org/C142853389","wikidata":"https://www.wikidata.org/wiki/Q744778","display_name":"Association (psychology)","level":2,"score":0.4276261627674103},{"id":"https://openalex.org/C2775893923","wikidata":"https://www.wikidata.org/wiki/Q17113455","display_name":"Circular RNA","level":4,"score":0.4201132655143738},{"id":"https://openalex.org/C8880873","wikidata":"https://www.wikidata.org/wiki/Q187787","display_name":"Genetic algorithm","level":2,"score":0.4125225245952606},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3903144896030426},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.385315477848053},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.3705892562866211},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.32471930980682373},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2757951617240906},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2681383490562439},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.2655782997608185},{"id":"https://openalex.org/C50644808","wikidata":"https://www.wikidata.org/wiki/Q192776","display_name":"Artificial neural network","level":2,"score":0.21986344456672668},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.14514413475990295},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000079962","descriptor_name":"RNA, Circular","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000079962","descriptor_name":"RNA, Circular","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000079962","descriptor_name":"RNA, Circular","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000079962","descriptor_name":"RNA, Circular","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000544","descriptor_name":"Alzheimer Disease","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000544","descriptor_name":"Alzheimer Disease","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000544","descriptor_name":"Alzheimer Disease","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000544","descriptor_name":"Alzheimer Disease","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D020022","descriptor_name":"Genetic Predisposition to Disease","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020022","descriptor_name":"Genetic Predisposition to Disease","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020022","descriptor_name":"Genetic Predisposition to Disease","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020022","descriptor_name":"Genetic Predisposition to Disease","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1142/s0219720024500185","is_oa":false,"landing_page_url":"http://dx.doi.org/10.1142/s0219720024500185","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:39215523","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39215523","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":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":54,"referenced_works":["https://openalex.org/W611910056","https://openalex.org/W1975847255","https://openalex.org/W2031593782","https://openalex.org/W2055027431","https://openalex.org/W2058835062","https://openalex.org/W2064165694","https://openalex.org/W2071271349","https://openalex.org/W2083461999","https://openalex.org/W2087718006","https://openalex.org/W2109553965","https://openalex.org/W2112001233","https://openalex.org/W2141222510","https://openalex.org/W2144137532","https://openalex.org/W2148143831","https://openalex.org/W2157825442","https://openalex.org/W2159092541","https://openalex.org/W2600581473","https://openalex.org/W2623552909","https://openalex.org/W2781702232","https://openalex.org/W2785390226","https://openalex.org/W2799307902","https://openalex.org/W2807602500","https://openalex.org/W2898991725","https://openalex.org/W2899436082","https://openalex.org/W2911964244","https://openalex.org/W2951739649","https://openalex.org/W2966844369","https://openalex.org/W2967043226","https://openalex.org/W2980767508","https://openalex.org/W3004538479","https://openalex.org/W3014858999","https://openalex.org/W3026308742","https://openalex.org/W3027920886","https://openalex.org/W3047927730","https://openalex.org/W3048095951","https://openalex.org/W3093873961","https://openalex.org/W3094804494","https://openalex.org/W3094881119","https://openalex.org/W3135802851","https://openalex.org/W3138507232","https://openalex.org/W3157315991","https://openalex.org/W3167160116","https://openalex.org/W3179572443","https://openalex.org/W3190084302","https://openalex.org/W4200110750","https://openalex.org/W4220859562","https://openalex.org/W4283772644","https://openalex.org/W4307502334","https://openalex.org/W4360770766","https://openalex.org/W4384664737","https://openalex.org/W4386295460","https://openalex.org/W4386946778","https://openalex.org/W4388905735","https://openalex.org/W4392119327"],"related_works":["https://openalex.org/W3013693939","https://openalex.org/W2159052453","https://openalex.org/W2566616303","https://openalex.org/W3131327266","https://openalex.org/W2734887215","https://openalex.org/W4297051394","https://openalex.org/W2752972570","https://openalex.org/W2145836866","https://openalex.org/W2803255133","https://openalex.org/W2024248021"],"abstract_inverted_index":{"Circular":[0],"RNAs":[1,6,53],"(circRNAs)":[2],"are":[3,34,90,146],"endogenous":[4],"non-coding":[5],"with":[7,92],"a":[8,102,114,150],"covalently":[9],"closed":[10],"loop":[11],"structure.":[12],"They":[13,21],"have":[14,22],"many":[15],"biological":[16],"functions,":[17],"mainly":[18],"regulatory":[19],"ones.":[20],"been":[23],"proven":[24],"to":[25,36,110,149,154],"modulate":[26],"protein-coding":[27],"genes":[28],"in":[29],"the":[30,49,69,85,93,125,133,179,183,186],"human":[31],"genome.":[32],"CircRNAs":[33],"linked":[35],"various":[37],"diseases":[38,55],"like":[39],"Alzheimer's":[40],"disease,":[41],"diabetes,":[42],"atherosclerosis,":[43],"Parkinson's":[44],"disease":[45,59,77],"and":[46,54,62,72,99,105,168,172],"cancer.":[47],"Identifying":[48],"associations":[50,89],"between":[51],"circular":[52,75],"is":[56,108],"essential":[57],"for":[58],"diagnosis,":[60],"prevention,":[61],"treatment.":[63],"The":[64,118,128,141,159,176],"proposed":[65,160,187],"model,":[66],"based":[67],"on":[68],"variational":[70,103,119],"autoencoder":[71,120],"genetic":[73,115,134],"algorithm":[74,116,135],"RNA":[76],"association":[78],"(VAGA-CDA),":[79],"predicts":[80],"novel":[81],"circRNA-disease":[82,88,157],"associations.":[83,158],"First,":[84],"experimentally":[86],"verified":[87],"augmented":[91,126],"synthetic":[94],"minority":[95],"oversampling":[96],"technique":[97],"(SMOTE)":[98],"regenerated":[100],"using":[101],"autoencoder,":[104],"feature":[106,130,143],"selection":[107,131],"applied":[109],"these":[111],"vectors":[112,144],"by":[113],"(GA).":[117],"effectively":[121,136],"extracts":[122],"features":[123],"from":[124],"samples.":[127],"optimized":[129],"of":[132,166,178,185],"carried":[137],"out":[138],"dimensionality":[139],"reduction.":[140],"sophisticated":[142],"extracted":[145],"then":[147],"given":[148],"Random":[151],"Forest":[152],"classifier":[153],"predict":[155],"new":[156],"model":[161],"yields":[162],"an":[163],"AUC":[164],"value":[165],"0.9644":[167],"0.9628":[169],"under":[170],"5-fold":[171],"10-fold":[173],"cross-validations,":[174],"respectively.":[175],"results":[177],"case":[180],"studies":[181],"indicate":[182],"robustness":[184],"model.":[188]},"counts_by_year":[{"year":2026,"cited_by_count":2}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}