{"id":"https://openalex.org/W4401328259","doi":"https://doi.org/10.1109/jbhi.2024.3438439","title":"Predicting miRNA-Disease Associations Based on Spectral Graph Transformer With Dynamic Attention and Regularization","display_name":"Predicting miRNA-Disease Associations Based on Spectral Graph Transformer With Dynamic Attention and Regularization","publication_year":2024,"publication_date":"2024-08-05","ids":{"openalex":"https://openalex.org/W4401328259","doi":"https://doi.org/10.1109/jbhi.2024.3438439","pmid":"https://pubmed.ncbi.nlm.nih.gov/39102330"},"language":"en","primary_location":{"id":"doi:10.1109/jbhi.2024.3438439","is_oa":false,"landing_page_url":"https://doi.org/10.1109/jbhi.2024.3438439","pdf_url":null,"source":{"id":"https://openalex.org/S2495854775","display_name":"IEEE Journal of Biomedical and Health Informatics","issn_l":"2168-2194","issn":["2168-2194","2168-2208"],"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 Journal of Biomedical and Health Informatics","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/A5100734156","display_name":"Zhengwei Li","orcid":"https://orcid.org/0000-0003-1644-1006"},"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":"Zhengwei Li","raw_affiliation_strings":["School of Computer Science and Technology, China University of Mining and Technology, Xuzhou, China"],"raw_orcid":"https://orcid.org/0000-0003-1644-1006","affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, China University of Mining and Technology, Xuzhou, China","institution_ids":["https://openalex.org/I25757504"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101448144","display_name":"Xu Bai","orcid":"https://orcid.org/0000-0003-0253-0884"},"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":"Xu Bai","raw_affiliation_strings":["School of Computer Science and Technology, China University of Mining and Technology, Xuzhou, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, China University of Mining and Technology, Xuzhou, China","institution_ids":["https://openalex.org/I25757504"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101948619","display_name":"Ru Nie","orcid":"https://orcid.org/0000-0003-4729-167X"},"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":"Ru Nie","raw_affiliation_strings":["School of Computer Science and Technology, China University of Mining and Technology, Xuzhou, China"],"raw_orcid":"https://orcid.org/0000-0003-4729-167X","affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, China University of Mining and Technology, Xuzhou, China","institution_ids":["https://openalex.org/I25757504"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100416803","display_name":"Yanyan Liu","orcid":"https://orcid.org/0000-0001-6465-4773"},"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":"Yanyan Liu","raw_affiliation_strings":["School of Computer Science and Technology, China University of Mining and Technology, Xuzhou, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, China University of Mining and Technology, Xuzhou, China","institution_ids":["https://openalex.org/I25757504"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100782513","display_name":"Lei Zhang","orcid":"https://orcid.org/0000-0003-2067-8719"},"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":"Lei Zhang","raw_affiliation_strings":["School of Computer Science and Technology, China University of Mining and Technology, Xuzhou, China"],"raw_orcid":"https://orcid.org/0000-0003-2067-8719","affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, China University of Mining and Technology, Xuzhou, China","institution_ids":["https://openalex.org/I25757504"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5019805735","display_name":"Zhu\u2010Hong You","orcid":"https://orcid.org/0000-0003-1266-2696"},"institutions":[{"id":"https://openalex.org/I17145004","display_name":"Northwestern Polytechnical University","ror":"https://ror.org/01y0j0j86","country_code":"CN","type":"education","lineage":["https://openalex.org/I17145004"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhuhong You","raw_affiliation_strings":["School of Computer Sciences, Northwestern Polytechnical University, Xi&#x0027;an, China"],"raw_orcid":"https://orcid.org/0000-0003-1266-2696","affiliations":[{"raw_affiliation_string":"School of Computer Sciences, Northwestern Polytechnical University, Xi&#x0027;an, China","institution_ids":["https://openalex.org/I17145004"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":1.1198,"has_fulltext":false,"cited_by_count":6,"citation_normalized_percentile":{"value":0.77578422,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":95,"max":99},"biblio":{"volume":"28","issue":"12","first_page":"7611","last_page":"7622"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10062","display_name":"MicroRNA in disease regulation","score":0.9916999936103821,"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":0.9916999936103821,"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":0.978600025177002,"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/T12610","display_name":"RNA regulation and disease","score":0.9552000164985657,"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":0.5762108564376831},{"id":"https://openalex.org/keywords/regularization","display_name":"Regularization (linguistics)","score":0.5479471683502197},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.4221649467945099},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.41945797204971313},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.3069060742855072}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5762108564376831},{"id":"https://openalex.org/C2776135515","wikidata":"https://www.wikidata.org/wiki/Q17143721","display_name":"Regularization (linguistics)","level":2,"score":0.5479471683502197},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.4221649467945099},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.41945797204971313},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.3069060742855072}],"mesh":[{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","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":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":"D000465","descriptor_name":"Algorithms","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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"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":true},{"descriptor_ui":"D020022","descriptor_name":"Genetic Predisposition to Disease","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D020022","descriptor_name":"Genetic Predisposition to Disease","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},{"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":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1109/jbhi.2024.3438439","is_oa":false,"landing_page_url":"https://doi.org/10.1109/jbhi.2024.3438439","pdf_url":null,"source":{"id":"https://openalex.org/S2495854775","display_name":"IEEE Journal of Biomedical and Health Informatics","issn_l":"2168-2194","issn":["2168-2194","2168-2208"],"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 Journal of Biomedical and Health Informatics","raw_type":"journal-article"},{"id":"pmid:39102330","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39102330","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 journal of biomedical and health informatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1655883540","display_name":null,"funder_award_id":"2023JJA170019","funder_id":"https://openalex.org/F4320322768","funder_display_name":"Natural Science Foundation of Guangxi Province"},{"id":"https://openalex.org/G4306865477","display_name":null,"funder_award_id":"ZR2022LZL003","funder_id":"https://openalex.org/F4320324174","funder_display_name":"Natural Science Foundation of Shandong Province"}],"funders":[{"id":"https://openalex.org/F4320322768","display_name":"Natural Science Foundation of Guangxi Province","ror":null},{"id":"https://openalex.org/F4320324174","display_name":"Natural Science Foundation of Shandong Province","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":49,"referenced_works":["https://openalex.org/W1569955072","https://openalex.org/W1992941735","https://openalex.org/W2014946489","https://openalex.org/W2022732522","https://openalex.org/W2035127570","https://openalex.org/W2047535851","https://openalex.org/W2047967134","https://openalex.org/W2074210527","https://openalex.org/W2078845383","https://openalex.org/W2098849917","https://openalex.org/W2121901052","https://openalex.org/W2126619650","https://openalex.org/W2128768066","https://openalex.org/W2141222510","https://openalex.org/W2158135353","https://openalex.org/W2171230529","https://openalex.org/W2410390867","https://openalex.org/W2592189645","https://openalex.org/W2609468276","https://openalex.org/W2771019114","https://openalex.org/W2801476357","https://openalex.org/W2802314916","https://openalex.org/W2889528845","https://openalex.org/W2897102263","https://openalex.org/W2899482650","https://openalex.org/W2998816304","https://openalex.org/W2999336918","https://openalex.org/W3044416282","https://openalex.org/W3093634254","https://openalex.org/W3093996932","https://openalex.org/W3100545798","https://openalex.org/W3146565636","https://openalex.org/W3201087642","https://openalex.org/W4205736070","https://openalex.org/W4210548518","https://openalex.org/W4246271082","https://openalex.org/W4294811162","https://openalex.org/W4366464062","https://openalex.org/W4367317875","https://openalex.org/W4386244465","https://openalex.org/W4389265363","https://openalex.org/W4389317742","https://openalex.org/W4391005914","https://openalex.org/W4391164184","https://openalex.org/W4393380917","https://openalex.org/W6717472466","https://openalex.org/W6789913677","https://openalex.org/W6797464607","https://openalex.org/W6850925396"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W4396696052","https://openalex.org/W2382290278","https://openalex.org/W4395014643"],"abstract_inverted_index":{"Extensive":[0],"research":[1],"indicates":[2],"that":[3,66],"microRNAs":[4],"(miRNAs)":[5],"play":[6],"a":[7,72,81,104,127,132,183],"crucial":[8],"role":[9],"in":[10,42,169,182],"the":[11,29,57,78,98,117,141,158,187,215,221],"analysis":[12],"of":[13,44,145,167,180,199,214],"complex":[14,30],"human":[15],"diseases.":[16,35,164],"Recently,":[17],"numerous":[18],"methods":[19,38],"utilizing":[20],"graph":[21,74,110,128],"neural":[22,111],"networks":[23],"have":[24],"been":[25],"developed":[26],"to":[27,50,115,136,156],"investigate":[28],"relationships":[31],"between":[32,161],"miRNAs":[33,162,219],"and":[34,47,95,147,163,206,212,223],"However,":[36],"these":[37,55],"often":[39],"face":[40],"challenges":[41],"terms":[43],"overall":[45],"effectiveness":[46],"are":[48,123],"sensitive":[49],"node":[51],"positioning.":[52],"To":[53],"address":[54],"issues,":[56],"researchers":[58],"introduce":[59],"DARSFormer,":[60],"an":[61,178,197],"advanced":[62],"deep":[63],"learning":[64],"model":[65],"integrates":[67],"dynamic":[68,133],"attention":[69,134],"mechanisms":[70],"with":[71,97],"spectral":[73,91],"Transformer":[75],"effectively.":[76],"In":[77],"DARSFormer":[79,168],"model,":[80],"miRNA-disease":[82,171],"heterogeneous":[83],"network":[84,89,112],"is":[85,113,153,174],"constructed":[86],"initially.":[87],"This":[88],"undergoes":[90],"decomposition":[92],"into":[93,103,126],"eigenvalues":[94],"eigenvectors,":[96],"eigenvalue":[99],"scalars":[100],"being":[101],"mapped":[102],"vector":[105],"space":[106],"subsequently.":[107],"An":[108],"orthogonal":[109],"employed":[114],"refine":[116],"parameter":[118],"matrix.":[119],"The":[120,165],"enhanced":[121,142],"features":[122,138,144],"then":[124],"input":[125],"Transformer,":[129],"which":[130],"utilizes":[131],"mechanism":[135],"amalgamate":[137],"by":[139],"aggregating":[140],"neighbor":[143],"miRNA":[146],"disease":[148],"nodes.":[149],"A":[150],"projection":[151],"layer":[152],"subsequently":[154],"utilized":[155],"derive":[157],"association":[159],"scores":[160],"performance":[166],"predicting":[170],"associations":[172],"(MDAs)":[173],"exemplary.":[175],"It":[176],"achieves":[177],"AUC":[179,198],"94.18%":[181],"five-fold":[184],"cross-validation":[185],"on":[186,192],"HMDD":[188,193],"v2.0":[189],"database.":[190],"Similarly,":[191],"v3.2,":[194],"it":[195],"records":[196],"95.27%.":[200],"Case":[201],"studies":[202],"involving":[203],"colorectal,":[204],"esophageal,":[205],"prostate":[207],"tumors":[208],"confirm":[209],"27,":[210],"28,":[211],"26":[213],"top":[216],"30":[217],"associated":[218],"against":[220],"dbDEMC":[222],"miR2Disease":[224],"databases,":[225],"respectively.":[226]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":2}],"updated_date":"2026-07-16T13:24:37.021932","created_date":"2025-10-10T00:00:00"}
