{"id":"https://openalex.org/W4406261405","doi":"https://doi.org/10.1109/bibm62325.2024.10822171","title":"Timely-MDA: A Benchmark for Generalizable MiRNA-Disease Association Prediction","display_name":"Timely-MDA: A Benchmark for Generalizable MiRNA-Disease Association Prediction","publication_year":2024,"publication_date":"2024-12-03","ids":{"openalex":"https://openalex.org/W4406261405","doi":"https://doi.org/10.1109/bibm62325.2024.10822171"},"language":"en","primary_location":{"id":"doi:10.1109/bibm62325.2024.10822171","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm62325.2024.10822171","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2024 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"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/A5049163072","display_name":"Yi Zhou","orcid":"https://orcid.org/0000-0002-2623-8960"},"institutions":[{"id":"https://openalex.org/I4210125143","display_name":"Chengdu University","ror":"https://ror.org/034z67559","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210125143"]},{"id":"https://openalex.org/I24185976","display_name":"Sichuan University","ror":"https://ror.org/011ashp19","country_code":"CN","type":"education","lineage":["https://openalex.org/I24185976"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Yi Zhou","raw_affiliation_strings":["Sichuan University,College of Computer Science,Chengdu,China"],"affiliations":[{"raw_affiliation_string":"Sichuan University,College of Computer Science,Chengdu,China","institution_ids":["https://openalex.org/I4210125143","https://openalex.org/I24185976"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033248765","display_name":"Xian Guan","orcid":null},"institutions":[{"id":"https://openalex.org/I24185976","display_name":"Sichuan University","ror":"https://ror.org/011ashp19","country_code":"CN","type":"education","lineage":["https://openalex.org/I24185976"]},{"id":"https://openalex.org/I4210125143","display_name":"Chengdu University","ror":"https://ror.org/034z67559","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210125143"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xian Guan","raw_affiliation_strings":["Sichuan University,College of Computer Science,Chengdu,China"],"affiliations":[{"raw_affiliation_string":"Sichuan University,College of Computer Science,Chengdu,China","institution_ids":["https://openalex.org/I4210125143","https://openalex.org/I24185976"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101094406","display_name":"Meixuan Wu","orcid":null},"institutions":[{"id":"https://openalex.org/I4210125143","display_name":"Chengdu University","ror":"https://ror.org/034z67559","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210125143"]},{"id":"https://openalex.org/I24185976","display_name":"Sichuan University","ror":"https://ror.org/011ashp19","country_code":"CN","type":"education","lineage":["https://openalex.org/I24185976"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Meixuan Wu","raw_affiliation_strings":["Sichuan University,College of Computer Science,Chengdu,China"],"affiliations":[{"raw_affiliation_string":"Sichuan University,College of Computer Science,Chengdu,China","institution_ids":["https://openalex.org/I4210125143","https://openalex.org/I24185976"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101224798","display_name":"Chengzhou Ouyang","orcid":null},"institutions":[{"id":"https://openalex.org/I24185976","display_name":"Sichuan University","ror":"https://ror.org/011ashp19","country_code":"CN","type":"education","lineage":["https://openalex.org/I24185976"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chengzhou Ouyang","raw_affiliation_strings":["Sichuan University,College of Life Science,Chengdu,China"],"affiliations":[{"raw_affiliation_string":"Sichuan University,College of Life Science,Chengdu,China","institution_ids":["https://openalex.org/I24185976"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5050314106","display_name":"Min Zhu","orcid":"https://orcid.org/0000-0002-5664-1558"},"institutions":[{"id":"https://openalex.org/I4210125143","display_name":"Chengdu University","ror":"https://ror.org/034z67559","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210125143"]},{"id":"https://openalex.org/I24185976","display_name":"Sichuan University","ror":"https://ror.org/011ashp19","country_code":"CN","type":"education","lineage":["https://openalex.org/I24185976"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Min Zhu","raw_affiliation_strings":["Sichuan University,College of Computer Science,Chengdu,China"],"affiliations":[{"raw_affiliation_string":"Sichuan University,College of Computer Science,Chengdu,China","institution_ids":["https://openalex.org/I4210125143","https://openalex.org/I24185976"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5049163072"],"corresponding_institution_ids":["https://openalex.org/I24185976","https://openalex.org/I4210125143"],"apc_list":null,"apc_paid":null,"fwci":0.3045,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.64729924,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":95},"biblio":{"volume":null,"issue":null,"first_page":"1755","last_page":"1758"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10062","display_name":"MicroRNA in disease regulation","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"}},"topics":[{"id":"https://openalex.org/T10062","display_name":"MicroRNA in disease regulation","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/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.9837999939918518,"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/T11765","display_name":"Circular RNAs in diseases","score":0.9304999709129333,"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/benchmark","display_name":"Benchmark (surveying)","score":0.7469874024391174},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6523022055625916},{"id":"https://openalex.org/keywords/association","display_name":"Association (psychology)","score":0.5710110068321228},{"id":"https://openalex.org/keywords/microrna","display_name":"microRNA","score":0.43362611532211304},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.4274039566516876},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4127240777015686},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.33372920751571655},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.13125163316726685},{"id":"https://openalex.org/keywords/psychology","display_name":"Psychology","score":0.10002520680427551},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.07558014988899231},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.056231141090393066}],"concepts":[{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.7469874024391174},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6523022055625916},{"id":"https://openalex.org/C142853389","wikidata":"https://www.wikidata.org/wiki/Q744778","display_name":"Association (psychology)","level":2,"score":0.5710110068321228},{"id":"https://openalex.org/C145059251","wikidata":"https://www.wikidata.org/wiki/Q310899","display_name":"microRNA","level":3,"score":0.43362611532211304},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.4274039566516876},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4127240777015686},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.33372920751571655},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.13125163316726685},{"id":"https://openalex.org/C15744967","wikidata":"https://www.wikidata.org/wiki/Q9418","display_name":"Psychology","level":0,"score":0.10002520680427551},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.07558014988899231},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.056231141090393066},{"id":"https://openalex.org/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0},{"id":"https://openalex.org/C542102704","wikidata":"https://www.wikidata.org/wiki/Q183257","display_name":"Psychotherapist","level":1,"score":0.0},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibm62325.2024.10822171","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm62325.2024.10822171","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2024 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Zero hunger","id":"https://metadata.un.org/sdg/2","score":0.6299999952316284}],"awards":[],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":17,"referenced_works":["https://openalex.org/W144423133","https://openalex.org/W2158135353","https://openalex.org/W2898440040","https://openalex.org/W2983166786","https://openalex.org/W3000082418","https://openalex.org/W3012871709","https://openalex.org/W3046375318","https://openalex.org/W3211778832","https://openalex.org/W4200043367","https://openalex.org/W4220859562","https://openalex.org/W4225402571","https://openalex.org/W4225752318","https://openalex.org/W4246271082","https://openalex.org/W4290546063","https://openalex.org/W4297891375","https://openalex.org/W4306353191","https://openalex.org/W4386305887"],"related_works":["https://openalex.org/W2378211422","https://openalex.org/W4321353415","https://openalex.org/W2745001401","https://openalex.org/W2130974462","https://openalex.org/W2028665553","https://openalex.org/W2086519370","https://openalex.org/W4246352526","https://openalex.org/W2121910908","https://openalex.org/W915438175","https://openalex.org/W4230315250"],"abstract_inverted_index":{"The":[0],"identification":[1],"of":[2,12,38,64,76,79,106,136,160,164],"miRNA-disease":[3],"associations":[4],"(MDAs)":[5],"holds":[6],"significant":[7],"value":[8],"in":[9,43],"the":[10,36,44,51,54,67,77,134,161],"field":[11],"disease":[13,109],"diagnosis":[14],"and":[15,53,66,108,111,123,156,169],"treatment.":[16],"Recently,":[17],"computational":[18],"prediction":[19,46,81,119,166],"methods":[20,120,138],"have":[21],"been":[22],"increasingly":[23],"proposed":[24,128],"to":[25,31],"detect":[26],"potential":[27],"MDAs,":[28],"so":[29],"as":[30],"assist":[32],"experimental":[33],"verifications.":[34],"Despite":[35],"success":[37],"deep":[39],"learning":[40],"models,":[41],"studies":[42],"MDA":[45,80,94,118,154,165],"are":[47,121,171],"still":[48],"limited":[49],"by":[50],"datasets":[52,60],"evaluation":[55,69,144],"framework":[56,70],"employed.":[57],"Concretely,":[58],"existing":[59,117],"comprise":[61],"only":[62],"hundreds":[63],"diseases,":[65],"random-split-based":[68],"provides":[71,148],"an":[72],"overly":[73],"optimistic":[74],"estimate":[75],"performance":[78,135],"methods.":[82,167],"In":[83],"this":[84],"study,":[85],"we":[86,97],"propose":[87],"a":[88,99,103,124,149],"novel":[89],"benchmark,":[90],"Timely-MDA,":[91],"for":[92,153],"generalizable":[93],"prediction.":[95],"First,":[96],"construct":[98],"comprehensive":[100],"dataset":[101],"comprising":[102],"broad":[104],"scope":[105],"miRNA":[107],"entities":[110],"diverse":[112],"semantic":[113],"features.":[114],"Second,":[115],"four":[116],"implemented,":[122],"new":[125],"baseline":[126],"is":[127,139],"based":[129],"on":[130],"our":[131,142],"dataset.":[132],"Third,":[133],"these":[137],"analyzed":[140],"using":[141],"timely-split":[143],"framework.":[145],"Overall,":[146],"Timely-MDA":[147],"robust":[150],"data":[151],"foundation":[152],"modeling,":[155],"enables":[157],"quantitative":[158],"estimation":[159],"generalization":[162],"ability":[163],"Data":[168],"code":[170],"available":[172],"at":[173],"https://github.com/EchoChou990919/Timely-MDA.":[174]},"counts_by_year":[{"year":2025,"cited_by_count":1}],"updated_date":"2025-12-27T23:08:20.325037","created_date":"2025-10-10T00:00:00"}
