{"id":"https://openalex.org/W4226097900","doi":"https://doi.org/10.1093/bib/bbac155","title":"RNMFLP: Predicting circRNA\u2013disease associations based on robust nonnegative matrix factorization and label propagation","display_name":"RNMFLP: Predicting circRNA\u2013disease associations based on robust nonnegative matrix factorization and label propagation","publication_year":2022,"publication_date":"2022-04-14","ids":{"openalex":"https://openalex.org/W4226097900","doi":"https://doi.org/10.1093/bib/bbac155","pmid":"https://pubmed.ncbi.nlm.nih.gov/35534179"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbac155","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbac155","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/A5100432712","display_name":"Peng Li","orcid":"https://orcid.org/0000-0002-5078-5091"},"institutions":[{"id":"https://openalex.org/I121296143","display_name":"Hunan University of Science and Technology","ror":"https://ror.org/02m9vrb24","country_code":"CN","type":"education","lineage":["https://openalex.org/I121296143"]},{"id":"https://openalex.org/I70986742","display_name":"Novelis (Canada)","ror":"https://ror.org/03wn09h25","country_code":"CA","type":"company","lineage":["https://openalex.org/I70986742"]}],"countries":["CA","CN"],"is_corresponding":false,"raw_author_name":"Li Peng","raw_affiliation_strings":["Hunan Key Laboratory for Service computing and Novel Software Technology","School of Computer Science and Engineering, Hunan University of Science and Technology , Xiangtan, 411201, Hunan, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Hunan Key Laboratory for Service computing and Novel Software Technology","institution_ids":["https://openalex.org/I70986742"]},{"raw_affiliation_string":"School of Computer Science and Engineering, Hunan University of Science and Technology , Xiangtan, 411201, Hunan, China","institution_ids":["https://openalex.org/I121296143"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076973508","display_name":"Yang Cheng","orcid":"https://orcid.org/0000-0001-9091-2019"},"institutions":[{"id":"https://openalex.org/I121296143","display_name":"Hunan University of Science and Technology","ror":"https://ror.org/02m9vrb24","country_code":"CN","type":"education","lineage":["https://openalex.org/I121296143"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Cheng Yang","raw_affiliation_strings":["School of Computer Science and Engineering, Hunan University of Science and Technology , Xiangtan, 411201, Hunan, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Hunan University of Science and Technology , Xiangtan, 411201, Hunan, China","institution_ids":["https://openalex.org/I121296143"]}]},{"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 , 10084, Beijing, China","The Future Laboratory, Tsinghua University , 10084, Beijing, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Academy of Arts and Design, Tsinghua University , 10084, Beijing, China","institution_ids":["https://openalex.org/I99065089"]},{"raw_affiliation_string":"The Future Laboratory, Tsinghua University , 10084, Beijing, China","institution_ids":["https://openalex.org/I99065089"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100441922","display_name":"Xiang Chen","orcid":"https://orcid.org/0000-0002-4797-8837"},"institutions":[{"id":"https://openalex.org/I121296143","display_name":"Hunan University of Science and Technology","ror":"https://ror.org/02m9vrb24","country_code":"CN","type":"education","lineage":["https://openalex.org/I121296143"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Xiang Chen","raw_affiliation_strings":["School of Computer Science and Engineering, Hunan University of Science and Technology , Xiangtan, 411201, Hunan, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Hunan University of Science and Technology , Xiangtan, 411201, Hunan, China","institution_ids":["https://openalex.org/I121296143"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044283271","display_name":"Xiangzheng Fu","orcid":"https://orcid.org/0000-0001-6840-2573"},"institutions":[{"id":"https://openalex.org/I16609230","display_name":"Hunan University","ror":"https://ror.org/05htk5m33","country_code":"CN","type":"education","lineage":["https://openalex.org/I16609230"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiangzheng Fu","raw_affiliation_strings":["College of Information Science and Engineering, Hunan University , Changsha, 410082, Hunan, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Information Science and Engineering, Hunan University , Changsha, 410082, Hunan, China","institution_ids":["https://openalex.org/I16609230"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100712198","display_name":"Wei Liu","orcid":"https://orcid.org/0009-0008-2009-6069"},"institutions":[{"id":"https://openalex.org/I4610292","display_name":"Xiangtan University","ror":"https://ror.org/00xsfaz62","country_code":"CN","type":"education","lineage":["https://openalex.org/I4610292"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Wei Liu","raw_affiliation_strings":["College of Information Engineering, Xiangtan University , Xiangtan, 411105, Hunan, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Information Engineering, Xiangtan University , Xiangtan, 411105, Hunan, China","institution_ids":["https://openalex.org/I4610292"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5100441922","https://openalex.org/A5100712198"],"corresponding_institution_ids":["https://openalex.org/I121296143","https://openalex.org/I4610292"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":5.5627,"has_fulltext":false,"cited_by_count":76,"citation_normalized_percentile":{"value":0.97391995,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":100},"biblio":{"volume":"23","issue":"5","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11765","display_name":"Circular RNAs in diseases","score":1.0,"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"}},"topics":[{"id":"https://openalex.org/T11765","display_name":"Circular RNAs in diseases","score":1.0,"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/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.9936000108718872,"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/T10062","display_name":"MicroRNA in disease regulation","score":0.9900000095367432,"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/non-negative-matrix-factorization","display_name":"Non-negative matrix factorization","score":0.6938675045967102},{"id":"https://openalex.org/keywords/factorization","display_name":"Factorization","score":0.5179821252822876},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4661397337913513},{"id":"https://openalex.org/keywords/matrix-decomposition","display_name":"Matrix decomposition","score":0.43849071860313416},{"id":"https://openalex.org/keywords/matrix","display_name":"Matrix (chemical analysis)","score":0.41873475909233093},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.3585662245750427},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3368374705314636},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.19592183828353882},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.09927073121070862},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.08620989322662354}],"concepts":[{"id":"https://openalex.org/C152671427","wikidata":"https://www.wikidata.org/wiki/Q10843505","display_name":"Non-negative matrix factorization","level":4,"score":0.6938675045967102},{"id":"https://openalex.org/C187834632","wikidata":"https://www.wikidata.org/wiki/Q188804","display_name":"Factorization","level":2,"score":0.5179821252822876},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4661397337913513},{"id":"https://openalex.org/C42355184","wikidata":"https://www.wikidata.org/wiki/Q1361088","display_name":"Matrix decomposition","level":3,"score":0.43849071860313416},{"id":"https://openalex.org/C106487976","wikidata":"https://www.wikidata.org/wiki/Q685816","display_name":"Matrix (chemical analysis)","level":2,"score":0.41873475909233093},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.3585662245750427},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3368374705314636},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.19592183828353882},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.09927073121070862},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.08620989322662354},{"id":"https://openalex.org/C158693339","wikidata":"https://www.wikidata.org/wiki/Q190524","display_name":"Eigenvalues and eigenvectors","level":2,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C43617362","wikidata":"https://www.wikidata.org/wiki/Q170050","display_name":"Chromatography","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000079962","descriptor_name":"RNA, Circular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000079962","descriptor_name":"RNA, Circular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000079962","descriptor_name":"RNA, Circular","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":"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":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","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}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bbac155","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbac155","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:35534179","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35534179","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":[{"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being","score":0.7400000095367432}],"awards":[{"id":"https://openalex.org/G4870067214","display_name":null,"funder_award_id":"61902125","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7363650575","display_name":null,"funder_award_id":"62002111","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":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":81,"referenced_works":["https://openalex.org/W611910056","https://openalex.org/W1977878983","https://openalex.org/W2010355969","https://openalex.org/W2028302281","https://openalex.org/W2055493067","https://openalex.org/W2064165694","https://openalex.org/W2106029302","https://openalex.org/W2119523409","https://openalex.org/W2124045889","https://openalex.org/W2128049108","https://openalex.org/W2141222510","https://openalex.org/W2157751286","https://openalex.org/W2157825442","https://openalex.org/W2259538443","https://openalex.org/W2589000475","https://openalex.org/W2590153856","https://openalex.org/W2601934706","https://openalex.org/W2603541578","https://openalex.org/W2607159126","https://openalex.org/W2617715606","https://openalex.org/W2620700193","https://openalex.org/W2726111596","https://openalex.org/W2750900465","https://openalex.org/W2755096075","https://openalex.org/W2755529729","https://openalex.org/W2765950793","https://openalex.org/W2774899198","https://openalex.org/W2780777007","https://openalex.org/W2786578820","https://openalex.org/W2795210358","https://openalex.org/W2795369958","https://openalex.org/W2799307902","https://openalex.org/W2800766678","https://openalex.org/W2801371079","https://openalex.org/W2806543920","https://openalex.org/W2807602500","https://openalex.org/W2809363952","https://openalex.org/W2811295501","https://openalex.org/W2883977408","https://openalex.org/W2884943532","https://openalex.org/W2888358121","https://openalex.org/W2898991725","https://openalex.org/W2899436082","https://openalex.org/W2913882083","https://openalex.org/W2916709262","https://openalex.org/W2919453023","https://openalex.org/W2942820662","https://openalex.org/W2953225943","https://openalex.org/W2962928958","https://openalex.org/W2966844369","https://openalex.org/W2967638886","https://openalex.org/W2971307593","https://openalex.org/W2980767508","https://openalex.org/W2981316968","https://openalex.org/W2999336918","https://openalex.org/W3006715646","https://openalex.org/W3007819083","https://openalex.org/W3014858999","https://openalex.org/W3037835453","https://openalex.org/W3082620742","https://openalex.org/W3088980850","https://openalex.org/W3119921402","https://openalex.org/W3120280121","https://openalex.org/W3126615506","https://openalex.org/W3153515934","https://openalex.org/W3157315991","https://openalex.org/W3158994825","https://openalex.org/W3169342439","https://openalex.org/W3177710193","https://openalex.org/W3193231898","https://openalex.org/W3195937938","https://openalex.org/W3198147676","https://openalex.org/W3206601677","https://openalex.org/W3212148037","https://openalex.org/W4213205929","https://openalex.org/W6619076491","https://openalex.org/W6750221229","https://openalex.org/W6751696187","https://openalex.org/W6752905391","https://openalex.org/W6775704321","https://openalex.org/W6800644531"],"related_works":["https://openalex.org/W2127243424","https://openalex.org/W4390394189","https://openalex.org/W2037504162","https://openalex.org/W2539013788","https://openalex.org/W2792706544","https://openalex.org/W1568451138","https://openalex.org/W2156699640","https://openalex.org/W2045265907","https://openalex.org/W2972997031","https://openalex.org/W34555840"],"abstract_inverted_index":{"Circular":[0],"RNAs":[1],"(circRNAs)":[2],"are":[3],"a":[4,52],"class":[5],"of":[6,78,149,177],"structurally":[7],"stable":[8],"endogenous":[9],"noncoding":[10],"RNA":[11],"molecules.":[12],"Increasing":[13],"studies":[14,164],"indicate":[15],"that":[16,57,153],"circRNAs":[17,27],"play":[18],"vital":[19],"roles":[20],"in":[21,28],"human":[22],"diseases.":[23],"However,":[24],"validating":[25],"disease-related":[26,182],"vivo":[29],"is":[30,87,106,127,155],"costly":[31],"and":[32,36,64,97,141,170],"time-consuming.":[33],"A":[34],"reliable":[35],"effective":[37],"computational":[38,53],"method":[39,54,179],"to":[40,69,74,108,114,129,157,180],"identify":[41],"circRNA-disease":[42,71,84,117,133],"associations":[43,134],"deserves":[44],"further":[45,173],"studies.":[46],"In":[47,161],"this":[48],"study,":[49],"we":[50],"propose":[51],"called":[55],"RNMFLP":[56,154],"combines":[58],"robust":[59],"nonnegative":[60],"matrix":[61,86,90],"factorization":[62],"(RNMF)":[63],"label":[65],"propagation":[66],"algorithm":[67,105,126],"(LP)":[68],"predict":[70,130],"associations.":[72],"First,":[73],"reduce":[75],"the":[76,82,93,98,103,110,120,124,136,158,175],"impact":[77],"false":[79],"negative":[80],"data,":[81],"original":[83],"adjacency":[85],"updated":[88],"by":[89],"multiplication":[91],"using":[92],"integrated":[94,137,142],"circRNA":[95,138],"similarity":[96,100,139,144],"disease":[99,143],"information.":[101],"Subsequently,":[102],"RNMF":[104],"used":[107],"obtain":[109],"restricted":[111],"latent":[112],"space":[113],"capture":[115],"potential":[116],"pairs":[118],"from":[119,135],"association":[121],"matrix.":[122],"Finally,":[123],"LP":[125],"utilized":[128],"more":[131],"accurate":[132],"network":[140],"network,":[145],"respectively.":[146],"Fivefold":[147],"cross-validation":[148],"four":[150],"datasets":[151],"shows":[152],"superior":[156],"state-of-the-art":[159],"methods.":[160],"addition,":[162],"case":[163],"on":[165],"lung":[166],"cancer,":[167],"hepatocellular":[168],"carcinoma":[169],"colorectal":[171],"cancer":[172],"demonstrate":[174],"reliability":[176],"our":[178],"discover":[181],"circRNAs.":[183]},"counts_by_year":[{"year":2026,"cited_by_count":5},{"year":2025,"cited_by_count":14},{"year":2024,"cited_by_count":28},{"year":2023,"cited_by_count":26},{"year":2022,"cited_by_count":3}],"updated_date":"2026-07-15T18:14:33.161393","created_date":"2025-10-10T00:00:00"}