{"id":"https://openalex.org/W4307440230","doi":"https://doi.org/10.1371/journal.pcbi.1010671","title":"iPiDA-GCN: Identification of piRNA-disease associations based on Graph Convolutional Network","display_name":"iPiDA-GCN: Identification of piRNA-disease associations based on Graph Convolutional Network","publication_year":2022,"publication_date":"2022-10-27","ids":{"openalex":"https://openalex.org/W4307440230","doi":"https://doi.org/10.1371/journal.pcbi.1010671","pmid":"https://pubmed.ncbi.nlm.nih.gov/36301998"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1010671","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1010671","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1010671&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1010671&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5027112671","display_name":"Jialu Hou","orcid":null},"institutions":[{"id":"https://openalex.org/I125839683","display_name":"Beijing Institute of Technology","ror":"https://ror.org/01skt4w74","country_code":"CN","type":"education","lineage":["https://openalex.org/I125839683","https://openalex.org/I890469752"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jialu Hou","raw_affiliation_strings":["School of Computer Science and Technology, Beijing Institute of Technology, Beijing, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Beijing Institute of Technology, Beijing, China","institution_ids":["https://openalex.org/I125839683"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081941068","display_name":"Hang Wei","orcid":"https://orcid.org/0000-0002-0579-1716"},"institutions":[{"id":"https://openalex.org/I149594827","display_name":"Xidian University","ror":"https://ror.org/05s92vm98","country_code":"CN","type":"education","lineage":["https://openalex.org/I149594827"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hang Wei","raw_affiliation_strings":["School of Computer Science and Technology, Xidian University, Xi'an, Shaanxi, China","School of Computer Science and Technology, Xidian University, Xi\u2019an, Shaanxi, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Xidian University, Xi'an, Shaanxi, China","institution_ids":["https://openalex.org/I149594827"]},{"raw_affiliation_string":"School of Computer Science and Technology, Xidian University, Xi\u2019an, Shaanxi, China","institution_ids":["https://openalex.org/I149594827"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100395532","display_name":"Bin Liu","orcid":"https://orcid.org/0000-0002-8520-8374"},"institutions":[{"id":"https://openalex.org/I125839683","display_name":"Beijing Institute of Technology","ror":"https://ror.org/01skt4w74","country_code":"CN","type":"education","lineage":["https://openalex.org/I125839683","https://openalex.org/I890469752"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Bin Liu","raw_affiliation_strings":["Advanced Research Institute of Multidisciplinary Science, Beijing Institute of Technology, Beijing, China","School of Computer Science and Technology, Beijing Institute of Technology, Beijing, China"],"raw_orcid":"https://orcid.org/0000-0002-8520-8374","affiliations":[{"raw_affiliation_string":"Advanced Research Institute of Multidisciplinary Science, Beijing Institute of Technology, Beijing, China","institution_ids":["https://openalex.org/I125839683"]},{"raw_affiliation_string":"School of Computer Science and Technology, Beijing Institute of Technology, Beijing, China","institution_ids":["https://openalex.org/I125839683"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5100395532"],"corresponding_institution_ids":["https://openalex.org/I125839683"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":3.8924,"has_fulltext":true,"cited_by_count":43,"citation_normalized_percentile":{"value":0.953261,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":100},"biblio":{"volume":"18","issue":"10","first_page":"e1010671","last_page":"e1010671"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10062","display_name":"MicroRNA in disease regulation","score":0.9976999759674072,"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":0.9976999759674072,"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/T11482","display_name":"RNA modifications and cancer","score":0.9948999881744385,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9944999814033508,"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/piwi-interacting-rna","display_name":"Piwi-interacting RNA","score":0.8947210311889648},{"id":"https://openalex.org/keywords/discriminative-model","display_name":"Discriminative model","score":0.7172499895095825},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.49448299407958984},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.491299569606781},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.45236581563949585},{"id":"https://openalex.org/keywords/disease","display_name":"Disease","score":0.4469418525695801},{"id":"https://openalex.org/keywords/convolutional-neural-network","display_name":"Convolutional neural network","score":0.42913684248924255},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.35594892501831055},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.306915819644928},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.30040255188941956},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2006361484527588},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.16458436846733093},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.16207945346832275},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.14012733101844788},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.09098300337791443},{"id":"https://openalex.org/keywords/rna-interference","display_name":"RNA interference","score":0.07582631707191467},{"id":"https://openalex.org/keywords/pathology","display_name":"Pathology","score":0.0718548595905304}],"concepts":[{"id":"https://openalex.org/C147724379","wikidata":"https://www.wikidata.org/wiki/Q2367421","display_name":"Piwi-interacting RNA","level":5,"score":0.8947210311889648},{"id":"https://openalex.org/C97931131","wikidata":"https://www.wikidata.org/wiki/Q5282087","display_name":"Discriminative model","level":2,"score":0.7172499895095825},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.49448299407958984},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.491299569606781},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.45236581563949585},{"id":"https://openalex.org/C2779134260","wikidata":"https://www.wikidata.org/wiki/Q12136","display_name":"Disease","level":2,"score":0.4469418525695801},{"id":"https://openalex.org/C81363708","wikidata":"https://www.wikidata.org/wiki/Q17084460","display_name":"Convolutional neural network","level":2,"score":0.42913684248924255},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.35594892501831055},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.306915819644928},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.30040255188941956},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2006361484527588},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.16458436846733093},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.16207945346832275},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.14012733101844788},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.09098300337791443},{"id":"https://openalex.org/C166703698","wikidata":"https://www.wikidata.org/wiki/Q201993","display_name":"RNA interference","level":4,"score":0.07582631707191467},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.0718548595905304}],"mesh":[{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D034741","descriptor_name":"RNA, Small Interfering","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D034741","descriptor_name":"RNA, Small Interfering","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D034741","descriptor_name":"RNA, Small Interfering","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D060388","descriptor_name":"Support Vector Machine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D060388","descriptor_name":"Support Vector Machine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D060388","descriptor_name":"Support Vector Machine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1371/journal.pcbi.1010671","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1010671","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1010671&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:36301998","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36301998","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:doaj.org/article:d136e25bdba34ef2821255430eb02d7b","is_oa":true,"landing_page_url":"https://doaj.org/article/d136e25bdba34ef2821255430eb02d7b","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 18, Iss 10, p e1010671 (2022)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:9662734","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9662734","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1010671","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1010671","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1010671&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/10","display_name":"Reduced inequalities","score":0.7200000286102295}],"awards":[{"id":"https://openalex.org/G3387167769","display_name":null,"funder_award_id":"No. 62271049","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6351260564","display_name":null,"funder_award_id":"62271049","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7970487852","display_name":null,"funder_award_id":"2018AAA0100100","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4307440230.pdf","grobid_xml":"https://content.openalex.org/works/W4307440230.grobid-xml"},"referenced_works_count":57,"referenced_works":["https://openalex.org/W1976526581","https://openalex.org/W1976937534","https://openalex.org/W1977733607","https://openalex.org/W2035930185","https://openalex.org/W2087064593","https://openalex.org/W2124045889","https://openalex.org/W2125910575","https://openalex.org/W2130765911","https://openalex.org/W2140099276","https://openalex.org/W2141222510","https://openalex.org/W2154851992","https://openalex.org/W2157825442","https://openalex.org/W2158698691","https://openalex.org/W2159092541","https://openalex.org/W2342787986","https://openalex.org/W2410390867","https://openalex.org/W2468907370","https://openalex.org/W2512308096","https://openalex.org/W2519887557","https://openalex.org/W2558748708","https://openalex.org/W2579869402","https://openalex.org/W2601934706","https://openalex.org/W2771972353","https://openalex.org/W2801501532","https://openalex.org/W2848432483","https://openalex.org/W2883645365","https://openalex.org/W2903232440","https://openalex.org/W2913427136","https://openalex.org/W2947148540","https://openalex.org/W2950777612","https://openalex.org/W2955033696","https://openalex.org/W2962928958","https://openalex.org/W2964015378","https://openalex.org/W2964321699","https://openalex.org/W2968344903","https://openalex.org/W2972556318","https://openalex.org/W2996268457","https://openalex.org/W3000082418","https://openalex.org/W3007872010","https://openalex.org/W3010127844","https://openalex.org/W3021338900","https://openalex.org/W3025373576","https://openalex.org/W3041819458","https://openalex.org/W3080501980","https://openalex.org/W3082883165","https://openalex.org/W3104097132","https://openalex.org/W3145736512","https://openalex.org/W3157142061","https://openalex.org/W3158889654","https://openalex.org/W3159197832","https://openalex.org/W3192134500","https://openalex.org/W4200473711","https://openalex.org/W4206816857","https://openalex.org/W4214819937","https://openalex.org/W4244900093","https://openalex.org/W6767049575","https://openalex.org/W6774758941"],"related_works":["https://openalex.org/W2158912913","https://openalex.org/W4221011377","https://openalex.org/W3002797315","https://openalex.org/W3192072282","https://openalex.org/W2965423738","https://openalex.org/W2924035798","https://openalex.org/W4366421230","https://openalex.org/W2796472296","https://openalex.org/W2013814485","https://openalex.org/W2111217101"],"abstract_inverted_index":{"With":[0],"the":[1,46,69,78,104,114,131,137,157,161],"growth":[2],"of":[3,71],"piRNA-disease":[4,33,58,82,119,153],"association":[5,34,79,120],"data,":[6],"it":[7],"is":[8,148],"possible":[9],"to":[10,18,67,117,150,155],"design":[11],"a":[12,27],"more":[13],"complex":[14,92],"machine":[15],"learning":[16],"method":[17,29],"solve":[19],"this":[20,23],"problem.":[21],"In":[22],"study,":[24],"we":[25],"propose":[26],"computational":[28],"called":[30],"iPiDA-GCN":[31,43,126,146],"for":[32],"identification":[35],"based":[36,48],"on":[37,49],"graph":[38],"convolutional":[39],"networks":[40,107],"(GCNs).":[41],"The":[42,145,164],"predictor":[44,147],"constructs":[45],"graphs":[47],"piRNA":[50],"sequence":[51],"information,":[52],"disease":[53],"semantic":[54],"information":[55,95],"and":[56,63,74,85,99,108,143,166],"known":[57],"associations.":[59],"Two":[60],"GCNs":[61,89],"(Asso-GCN":[62],"Sim-GCN)":[64],"are":[65,111,169],"used":[66],"extract":[68],"features":[70,139],"both":[72],"piRNAs":[73],"diseases":[75],"by":[76,141],"capturing":[77],"patterns":[80],"from":[81,96,136],"interaction":[83],"network":[84,93],"two":[86],"similarity":[87],"networks.":[88],"can":[90],"capture":[91],"structure":[94],"these":[97],"networks,":[98],"learn":[100],"discriminative":[101,138],"features.":[102],"Finally,":[103],"full":[105],"connection":[106],"inner":[109],"production":[110],"utilized":[112],"as":[113],"output":[115],"module":[116],"predict":[118],"scores.":[121],"Experimental":[122],"results":[123],"demonstrate":[124],"that":[125],"achieves":[127],"better":[128],"performance":[129],"than":[130],"other":[132],"state-of-the-art":[133],"methods,":[134],"benefitted":[135],"extracted":[140],"Asso-GCN":[142],"Sim-GCN.":[144],"able":[149],"detect":[151],"new":[152],"associations":[154],"reveal":[156],"potential":[158],"pathogenesis":[159],"at":[160,171],"RNA":[162],"level.":[163],"data":[165],"source":[167],"code":[168],"available":[170],"http://bliulab.net/iPiDA-GCN/.":[172]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":12},{"year":2024,"cited_by_count":17},{"year":2023,"cited_by_count":11},{"year":2022,"cited_by_count":1}],"updated_date":"2026-01-13T01:12:25.745995","created_date":"2025-10-10T00:00:00"}
