{"id":"https://openalex.org/W4412171631","doi":"https://doi.org/10.1109/tcbbio.2025.3587877","title":"Stacked Graph Attention Network With Temporal Modeling for lncRNA-miRNA Association Network","display_name":"Stacked Graph Attention Network With Temporal Modeling for lncRNA-miRNA Association Network","publication_year":2025,"publication_date":"2025-07-10","ids":{"openalex":"https://openalex.org/W4412171631","doi":"https://doi.org/10.1109/tcbbio.2025.3587877","pmid":"https://pubmed.ncbi.nlm.nih.gov/40811279"},"language":"en","primary_location":{"id":"doi:10.1109/tcbbio.2025.3587877","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbbio.2025.3587877","pdf_url":null,"source":{"id":"https://openalex.org/S5407042751","display_name":"IEEE Transactions on Computational Biology and Bioinformatics","issn_l":"2998-4165","issn":["2998-4165"],"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":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Computational Biology and Bioinformatics","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/A5007897691","display_name":"Shivani Saxena","orcid":"https://orcid.org/0000-0002-8828-1374"},"institutions":[{"id":"https://openalex.org/I4210091027","display_name":"Indian Institute of Advanced Research","ror":"https://ror.org/00c5q9r49","country_code":"IN","type":"education","lineage":["https://openalex.org/I4210091027"]}],"countries":["IN"],"is_corresponding":true,"raw_author_name":"Shivani Saxena","raw_affiliation_strings":["School of Computing and Technology (SoCT), Institute of Advanced Research, Gandhinagar, India","School of Computing and Technology (SoCT), Institute of Advanced Research, Gandhinagar, Gujarat, India"],"affiliations":[{"raw_affiliation_string":"School of Computing and Technology (SoCT), Institute of Advanced Research, Gandhinagar, India","institution_ids":["https://openalex.org/I4210091027"]},{"raw_affiliation_string":"School of Computing and Technology (SoCT), Institute of Advanced Research, Gandhinagar, Gujarat, India","institution_ids":["https://openalex.org/I4210091027"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5010966786","display_name":"Ahsan Z. Rizvi","orcid":"https://orcid.org/0000-0002-5884-4690"},"institutions":[{"id":"https://openalex.org/I4210091027","display_name":"Indian Institute of Advanced Research","ror":"https://ror.org/00c5q9r49","country_code":"IN","type":"education","lineage":["https://openalex.org/I4210091027"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Ahsan Z. Rizvi","raw_affiliation_strings":["School of Computing and Technology (SoCT), Institute of Advanced Research, Gandhinagar, India","School of Computing and Technology (SoCT), Institute of Advanced Research, Gandhinagar, Gujarat, India"],"affiliations":[{"raw_affiliation_string":"School of Computing and Technology (SoCT), Institute of Advanced Research, Gandhinagar, India","institution_ids":["https://openalex.org/I4210091027"]},{"raw_affiliation_string":"School of Computing and Technology (SoCT), Institute of Advanced Research, Gandhinagar, Gujarat, India","institution_ids":["https://openalex.org/I4210091027"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5007897691"],"corresponding_institution_ids":["https://openalex.org/I4210091027"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.2713811,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"22","issue":"5","first_page":"2216","last_page":"2229"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.9986000061035156,"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/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.9986000061035156,"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/computer-science","display_name":"Computer science","score":0.5678413510322571},{"id":"https://openalex.org/keywords/association","display_name":"Association (psychology)","score":0.5127378702163696},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.4127088189125061},{"id":"https://openalex.org/keywords/computer-network","display_name":"Computer network","score":0.3839457929134369},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.2734023630619049},{"id":"https://openalex.org/keywords/psychology","display_name":"Psychology","score":0.12206298112869263}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5678413510322571},{"id":"https://openalex.org/C142853389","wikidata":"https://www.wikidata.org/wiki/Q744778","display_name":"Association (psychology)","level":2,"score":0.5127378702163696},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.4127088189125061},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.3839457929134369},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.2734023630619049},{"id":"https://openalex.org/C15744967","wikidata":"https://www.wikidata.org/wiki/Q9418","display_name":"Psychology","level":0,"score":0.12206298112869263},{"id":"https://openalex.org/C542102704","wikidata":"https://www.wikidata.org/wiki/Q183257","display_name":"Psychotherapist","level":1,"score":0.0}],"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":"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":"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":"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},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1109/tcbbio.2025.3587877","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbbio.2025.3587877","pdf_url":null,"source":{"id":"https://openalex.org/S5407042751","display_name":"IEEE Transactions on Computational Biology and Bioinformatics","issn_l":"2998-4165","issn":["2998-4165"],"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":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},{"id":"pmid:40811279","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40811279","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 transactions on computational biology and bioinformatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":82,"referenced_works":["https://openalex.org/W1988031492","https://openalex.org/W1998907224","https://openalex.org/W2146573461","https://openalex.org/W2152894234","https://openalex.org/W2153826038","https://openalex.org/W2154855927","https://openalex.org/W2157512257","https://openalex.org/W2474656750","https://openalex.org/W2521005586","https://openalex.org/W2531500048","https://openalex.org/W2548536600","https://openalex.org/W2748551035","https://openalex.org/W2766950760","https://openalex.org/W2767546566","https://openalex.org/W2789865792","https://openalex.org/W2845313104","https://openalex.org/W2846643364","https://openalex.org/W2898440040","https://openalex.org/W2899028887","https://openalex.org/W2913861934","https://openalex.org/W2943884917","https://openalex.org/W2968550377","https://openalex.org/W2994671593","https://openalex.org/W3002468721","https://openalex.org/W3004987428","https://openalex.org/W3089123840","https://openalex.org/W3097173659","https://openalex.org/W3098372957","https://openalex.org/W3115880421","https://openalex.org/W3133431009","https://openalex.org/W3136042383","https://openalex.org/W3187582009","https://openalex.org/W3191577436","https://openalex.org/W3205934563","https://openalex.org/W4206703149","https://openalex.org/W4304193657","https://openalex.org/W4306729864","https://openalex.org/W4308616034","https://openalex.org/W4375955768","https://openalex.org/W4380488089","https://openalex.org/W4386316616","https://openalex.org/W4388698606","https://openalex.org/W4388766831","https://openalex.org/W4389048048","https://openalex.org/W4389159526","https://openalex.org/W4389208513","https://openalex.org/W4389918314","https://openalex.org/W4390474267","https://openalex.org/W4391035666","https://openalex.org/W4392571650","https://openalex.org/W4393132247","https://openalex.org/W4394749617","https://openalex.org/W4395682198","https://openalex.org/W4399226355","https://openalex.org/W4399241503","https://openalex.org/W4399319394","https://openalex.org/W4399637718","https://openalex.org/W4399691567","https://openalex.org/W4399727154","https://openalex.org/W4399806753","https://openalex.org/W4400390698","https://openalex.org/W4401889742","https://openalex.org/W4402192457","https://openalex.org/W4402786130","https://openalex.org/W4402850344","https://openalex.org/W4402966964","https://openalex.org/W4403184375","https://openalex.org/W4404369323","https://openalex.org/W4404717152","https://openalex.org/W4405204942","https://openalex.org/W4405360032","https://openalex.org/W4405571072","https://openalex.org/W4406089597","https://openalex.org/W4406098232","https://openalex.org/W4406185698","https://openalex.org/W4407316259","https://openalex.org/W4407414894","https://openalex.org/W4408301789","https://openalex.org/W4408773024","https://openalex.org/W4409058393","https://openalex.org/W4409225474","https://openalex.org/W4410553504"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W4391913857","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W4396696052"],"abstract_inverted_index":{"Long":[0],"non-coding":[1],"RNAs":[2],"(lncRNAs)":[3],"and":[4,14,46,71,76,93,106,124,131,140],"microRNAs":[5],"(miRNAs)":[6],"play":[7],"critical":[8],"roles":[9],"in":[10,120,138],"regulating":[11],"biological":[12,139],"processes":[13],"disease":[15,33,141],"mechanisms":[16],"through":[17],"their":[18],"interactions,":[19],"known":[20],"as":[21],"lncRNA-miRNA":[22,136],"associations":[23,137],"(LMAs).":[24],"Accurate":[25],"prediction":[26],"of":[27,49,74],"LMAs":[28],"is":[29],"essential":[30],"for":[31],"understanding":[32],"progression,":[34],"yet":[35],"existing":[36],"computational":[37],"methods":[38,119],"often":[39],"exhibit":[40],"inadequate":[41],"feature":[42],"integration,":[43],"limited":[44],"generalizability,":[45],"insufficient":[47],"modeling":[48],"complex":[50],"interactions.":[51],"This":[52],"study":[53],"introduces":[54],"the":[55],"Stacked":[56],"Graph":[57,82],"Attention":[58,83],"Network":[59,84],"with":[60],"Temporal":[61],"Modeling":[62],"(SGAT-TM),":[63],"a":[64,80,89,94],"novel":[65],"framework":[66],"that":[67,115],"integrates":[68],"statistical,":[69],"graph-structural,":[70],"sequence-derived":[72],"features":[73],"lncRNAs":[75],"miRNAs.":[77],"SGAT-TM":[78,116,126],"utilizes":[79],"multilayer":[81,90],"(GAT),":[85],"enhanced":[86],"by":[87],"self-attention,":[88],"perceptron":[91],"(MLP),":[92],"Gated":[95],"Recurrent":[96],"Unit":[97],"(GRU)":[98],"to":[99],"capture":[100],"LMA":[101,128],"patterns,":[102],"preserve":[103],"long-range":[104],"dependencies,":[105],"produce":[107],"robust":[108],"representations.":[109],"Evaluation":[110],"on":[111],"benchmark":[112],"datasets":[113],"demonstrates":[114],"outperforms":[117],"state-of-the-art":[118],"predictive":[121],"accuracy,":[122],"robustness,":[123],"generalizability.":[125],"enhances":[127],"network":[129],"analysis":[130],"provides":[132],"significant":[133],"insights":[134],"into":[135],"contexts.":[142]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
