{"id":"https://openalex.org/W4207038304","doi":"https://doi.org/10.1093/bib/bbac021","title":"Prediction of potential miRNA\u2013disease associations based on stacked autoencoder","display_name":"Prediction of potential miRNA\u2013disease associations based on stacked autoencoder","publication_year":2022,"publication_date":"2022-01-24","ids":{"openalex":"https://openalex.org/W4207038304","doi":"https://doi.org/10.1093/bib/bbac021","pmid":"https://pubmed.ncbi.nlm.nih.gov/35176761"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbac021","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbac021","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","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/A5027613930","display_name":"Chun-Chun Wang","orcid":"https://orcid.org/0000-0002-6795-4007"},"institutions":[{"id":"https://openalex.org/I25757504","display_name":"China University of Mining and Technology","ror":"https://ror.org/01xt2dr21","country_code":"CN","type":"education","lineage":["https://openalex.org/I25757504"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chun-Chun Wang","raw_affiliation_strings":["Artificial Intelligence Research Institute, China University of Mining and Technology, Xuzhou, 221116, China","School of Information and Control Engineering, China University of Mining and Technology, Xuzhou, 221116, China"],"raw_orcid":"https://orcid.org/0000-0002-6795-4007","affiliations":[{"raw_affiliation_string":"Artificial Intelligence Research Institute, China University of Mining and Technology, Xuzhou, 221116, China","institution_ids":["https://openalex.org/I25757504"]},{"raw_affiliation_string":"School of Information and Control Engineering, China University of Mining and Technology, Xuzhou, 221116, China","institution_ids":["https://openalex.org/I25757504"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101432511","display_name":"Tianhao Li","orcid":"https://orcid.org/0000-0001-7496-9277"},"institutions":[{"id":"https://openalex.org/I25757504","display_name":"China University of Mining and Technology","ror":"https://ror.org/01xt2dr21","country_code":"CN","type":"education","lineage":["https://openalex.org/I25757504"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Tian-Hao Li","raw_affiliation_strings":["School of Information and Control Engineering, China University of Mining and Technology, Xuzhou, 221116, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Information and Control Engineering, China University of Mining and Technology, Xuzhou, 221116, China","institution_ids":["https://openalex.org/I25757504"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100744865","display_name":"Huang Li","orcid":"https://orcid.org/0000-0003-4669-3466"},"institutions":[{"id":"https://openalex.org/I99065089","display_name":"Tsinghua University","ror":"https://ror.org/03cve4549","country_code":"CN","type":"education","lineage":["https://openalex.org/I99065089"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Li Huang","raw_affiliation_strings":["Academy of Arts and Design, Tsinghua University, Beijing, 10084, China","The Future Laboratory, Tsinghua University, Beijing, 10084, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Academy of Arts and Design, Tsinghua University, Beijing, 10084, China","institution_ids":["https://openalex.org/I99065089"]},{"raw_affiliation_string":"The Future Laboratory, Tsinghua University, Beijing, 10084, China","institution_ids":["https://openalex.org/I99065089"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5036210249","display_name":"Xing Chen","orcid":"https://orcid.org/0000-0001-9028-5342"},"institutions":[{"id":"https://openalex.org/I25757504","display_name":"China University of Mining and Technology","ror":"https://ror.org/01xt2dr21","country_code":"CN","type":"education","lineage":["https://openalex.org/I25757504"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Xing Chen","raw_affiliation_strings":["Artificial Intelligence Research Institute, China University of Mining and Technology, Xuzhou, 221116, China"],"raw_orcid":"https://orcid.org/0000-0001-9028-5342","affiliations":[{"raw_affiliation_string":"Artificial Intelligence Research Institute, China University of Mining and Technology, Xuzhou, 221116, China","institution_ids":["https://openalex.org/I25757504"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5036210249"],"corresponding_institution_ids":["https://openalex.org/I25757504"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":6.8376,"has_fulltext":false,"cited_by_count":70,"citation_normalized_percentile":{"value":0.98032714,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"23","issue":"2","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10062","display_name":"MicroRNA in disease regulation","score":1.0,"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":1.0,"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":0.9997000098228455,"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":0.9979000091552734,"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/autoencoder","display_name":"Autoencoder","score":0.8814961910247803},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4968874752521515},{"id":"https://openalex.org/keywords/microrna","display_name":"microRNA","score":0.4601081311702728},{"id":"https://openalex.org/keywords/disease","display_name":"Disease","score":0.4324420690536499},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4293457269668579},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4112577438354492},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.33971917629241943},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.27985405921936035},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2069668173789978},{"id":"https://openalex.org/keywords/artificial-neural-network","display_name":"Artificial neural network","score":0.16283568739891052},{"id":"https://openalex.org/keywords/internal-medicine","display_name":"Internal medicine","score":0.12953510880470276},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.11451324820518494}],"concepts":[{"id":"https://openalex.org/C101738243","wikidata":"https://www.wikidata.org/wiki/Q786435","display_name":"Autoencoder","level":3,"score":0.8814961910247803},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4968874752521515},{"id":"https://openalex.org/C145059251","wikidata":"https://www.wikidata.org/wiki/Q310899","display_name":"microRNA","level":3,"score":0.4601081311702728},{"id":"https://openalex.org/C2779134260","wikidata":"https://www.wikidata.org/wiki/Q12136","display_name":"Disease","level":2,"score":0.4324420690536499},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4293457269668579},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4112577438354492},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.33971917629241943},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.27985405921936035},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2069668173789978},{"id":"https://openalex.org/C50644808","wikidata":"https://www.wikidata.org/wiki/Q192776","display_name":"Artificial neural network","level":2,"score":0.16283568739891052},{"id":"https://openalex.org/C126322002","wikidata":"https://www.wikidata.org/wiki/Q11180","display_name":"Internal medicine","level":1,"score":0.12953510880470276},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.11451324820518494}],"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":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","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":"D008175","descriptor_name":"Lung Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D008175","descriptor_name":"Lung Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D008175","descriptor_name":"Lung Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020022","descriptor_name":"Genetic Predisposition to Disease","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020022","descriptor_name":"Genetic Predisposition to Disease","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020022","descriptor_name":"Genetic Predisposition to Disease","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bbac021","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbac021","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:35176761","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35176761","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":"Briefings in bioinformatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G7254200250","display_name":null,"funder_award_id":"2019ZDPY01","funder_id":"https://openalex.org/F4320335787","funder_display_name":"Fundamental Research Funds for the Central Universities"}],"funders":[{"id":"https://openalex.org/F4320335787","display_name":"Fundamental Research Funds for the Central Universities","ror":null}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":68,"referenced_works":["https://openalex.org/W14098964","https://openalex.org/W144423133","https://openalex.org/W1436642346","https://openalex.org/W1648301895","https://openalex.org/W1840972770","https://openalex.org/W1966566182","https://openalex.org/W1974650935","https://openalex.org/W1998404710","https://openalex.org/W2002995168","https://openalex.org/W2014640795","https://openalex.org/W2014974499","https://openalex.org/W2015284016","https://openalex.org/W2022732522","https://openalex.org/W2024704386","https://openalex.org/W2026099724","https://openalex.org/W2042484777","https://openalex.org/W2059658112","https://openalex.org/W2062290101","https://openalex.org/W2071813506","https://openalex.org/W2083333534","https://openalex.org/W2084781111","https://openalex.org/W2085592081","https://openalex.org/W2096663717","https://openalex.org/W2106029302","https://openalex.org/W2109802184","https://openalex.org/W2118814218","https://openalex.org/W2126619650","https://openalex.org/W2128768066","https://openalex.org/W2129158737","https://openalex.org/W2129355962","https://openalex.org/W2130979840","https://openalex.org/W2132694427","https://openalex.org/W2139528114","https://openalex.org/W2141222510","https://openalex.org/W2142937131","https://openalex.org/W2146292498","https://openalex.org/W2155735026","https://openalex.org/W2158135353","https://openalex.org/W2158690779","https://openalex.org/W2171232191","https://openalex.org/W2410390867","https://openalex.org/W2416873003","https://openalex.org/W2462108616","https://openalex.org/W2508069933","https://openalex.org/W2511620854","https://openalex.org/W2560198845","https://openalex.org/W2584926544","https://openalex.org/W2595251399","https://openalex.org/W2598821379","https://openalex.org/W2601934706","https://openalex.org/W2607159126","https://openalex.org/W2765950793","https://openalex.org/W2781702232","https://openalex.org/W2807827186","https://openalex.org/W2888358121","https://openalex.org/W2919115771","https://openalex.org/W2942820662","https://openalex.org/W2943186426","https://openalex.org/W2990138404","https://openalex.org/W3087406311","https://openalex.org/W3099000562","https://openalex.org/W3119005666","https://openalex.org/W3134169372","https://openalex.org/W3193231898","https://openalex.org/W4200110750","https://openalex.org/W4211048478","https://openalex.org/W6718962110","https://openalex.org/W6747298757"],"related_works":["https://openalex.org/W3013693939","https://openalex.org/W2566616303","https://openalex.org/W2159052453","https://openalex.org/W3131327266","https://openalex.org/W2734887215","https://openalex.org/W4297051394","https://openalex.org/W2752972570","https://openalex.org/W4386815338","https://openalex.org/W4220775285","https://openalex.org/W2038886521"],"abstract_inverted_index":{"In":[0,57,74],"recent":[1],"years,":[2],"increasing":[3],"biological":[4,47],"experiments":[5],"and":[6,34,55,96,149,161,165,176,223,243],"scientific":[7],"studies":[8,205],"have":[9],"demonstrated":[10],"that":[11],"microRNA":[12],"(miRNA)":[13],"plays":[14],"an":[15,89,115,173],"important":[16],"role":[17],"in":[18,88,109,163,183],"the":[19,77,93,97,122,130,209,228],"development":[20],"of":[21,37,100,129,133,159,179,186,196,212,227],"human":[22],"complex":[23],"diseases.":[24,38],"Therefore,":[25,138],"discovering":[26],"miRNA-disease":[27,40,78,136,249],"associations":[28,41],"can":[29,125],"contribute":[30],"to":[31,52,82,106,121,206,246],"accurate":[32],"diagnosis":[33],"effective":[35],"treatment":[36],"Identifying":[39],"through":[42],"computational":[43,63],"methods":[44],"based":[45],"on":[46],"data":[48],"has":[49],"been":[50],"proven":[51],"be":[53,240],"low-cost":[54],"high-efficiency.":[56],"this":[58],"study,":[59],"we":[60,200],"proposed":[61],"a":[62,84,110,154,215,241],"model":[64,245],"named":[65],"Stacked":[66,85],"Autoencoder":[67,86],"for":[68,142],"potential":[69,248],"MiRNA-Disease":[70],"Association":[71],"prediction":[72],"(SAEMDA).":[73],"SAEMDA,":[75],"all":[76,134],"samples":[79,95,103,148],"were":[80,104,192,233],"used":[81],"pretrain":[83],"(SAE)":[87],"unsupervised":[90],"manner.":[91],"Then,":[92],"positive":[94],"same":[98],"number":[99],"selected":[101],"negative":[102],"utilized":[105],"fine-tune":[107],"SAE":[108],"supervised":[111],"manner":[112],"after":[113],"adding":[114],"output":[116],"layer":[117],"with":[118],"softmax":[119],"classifier":[120],"SAE.":[123],"SAEMDA":[124,139,156,171,238],"make":[126],"full":[127],"use":[128],"feature":[131],"information":[132],"unlabeled":[135,151],"pairs.":[137],"is":[140],"suitable":[141],"our":[143],"dataset":[144],"containing":[145],"small":[146],"labeled":[147],"large":[150],"samples.":[152],"As":[153,214],"result,":[155,216],"achieved":[157],"AUCs":[158],"0.9210":[160],"0.8343":[162],"global":[164],"local":[166],"leave-one-out":[167],"cross":[168,188],"validation.":[169,189],"Besides,":[170],"obtained":[172],"average":[174],"AUC":[175],"standard":[177],"deviation":[178],"0.9102":[180],"\u00b1":[181],"/-0.0029":[182],"100":[184],"times":[185],"5-fold":[187],"These":[190],"results":[191],"better":[193],"than":[194],"those":[195],"previous":[197],"models.":[198],"Moreover,":[199],"carried":[201],"out":[202],"three":[203],"case":[204],"further":[207],"demonstrate":[208],"predictive":[210],"accuracy":[211],"SAEMDA.":[213],"82%":[217],"(breast":[218],"neoplasms),":[219],"100%":[220],"(lung":[221],"neoplasms)":[222,226],"90%":[224],"(esophageal":[225],"top":[229],"50":[230],"predicted":[231],"miRNAs":[232],"verified":[234],"by":[235],"databases.":[236],"Thus,":[237],"could":[239],"useful":[242],"reliable":[244],"predict":[247],"associations.":[250]},"counts_by_year":[{"year":2026,"cited_by_count":5},{"year":2025,"cited_by_count":16},{"year":2024,"cited_by_count":20},{"year":2023,"cited_by_count":12},{"year":2022,"cited_by_count":17}],"updated_date":"2026-06-10T14:10:52.464848","created_date":"2025-10-10T00:00:00"}
