{"id":"https://openalex.org/W4380881660","doi":"https://doi.org/10.1109/jbhi.2023.3286917","title":"Prediction of LncRNA-Protein Interactions Based on Kernel Combinations and Graph Convolutional Networks","display_name":"Prediction of LncRNA-Protein Interactions Based on Kernel Combinations and Graph Convolutional Networks","publication_year":2023,"publication_date":"2023-06-16","ids":{"openalex":"https://openalex.org/W4380881660","doi":"https://doi.org/10.1109/jbhi.2023.3286917","pmid":"https://pubmed.ncbi.nlm.nih.gov/37327093"},"language":"en","primary_location":{"id":"doi:10.1109/jbhi.2023.3286917","is_oa":false,"landing_page_url":"https://doi.org/10.1109/jbhi.2023.3286917","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/A5101887315","display_name":"Cong Shen","orcid":"https://orcid.org/0000-0001-5801-3320"},"institutions":[{"id":"https://openalex.org/I136765683","display_name":"Tianjin University of Technology","ror":"https://ror.org/00zbe0w13","country_code":"CN","type":"education","lineage":["https://openalex.org/I136765683"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Cong Shen","raw_affiliation_strings":["School of Computer Science and Engineering, Tianjin University of Technology, Tianjin, China","Engineering Research Center of Learning-Based Intelligent System, Ministry of Education, Tianjin, China"],"raw_orcid":"https://orcid.org/0000-0001-5801-3320","affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Tianjin University of Technology, Tianjin, China","institution_ids":["https://openalex.org/I136765683"]},{"raw_affiliation_string":"Engineering Research Center of Learning-Based Intelligent System, Ministry of Education, Tianjin, China","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102708831","display_name":"Dongdong Mao","orcid":"https://orcid.org/0000-0002-6108-1858"},"institutions":[{"id":"https://openalex.org/I136765683","display_name":"Tianjin University of Technology","ror":"https://ror.org/00zbe0w13","country_code":"CN","type":"education","lineage":["https://openalex.org/I136765683"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Dongdong Mao","raw_affiliation_strings":["School of Computer Science and Engineering, Tianjin University of Technology, Tianjin, China","Engineering Research Center of Learning-Based Intelligent System, Ministry of Education, Tianjin, China"],"raw_orcid":"https://orcid.org/0000-0002-6108-1858","affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Tianjin University of Technology, Tianjin, China","institution_ids":["https://openalex.org/I136765683"]},{"raw_affiliation_string":"Engineering Research Center of Learning-Based Intelligent System, Ministry of Education, Tianjin, China","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001619694","display_name":"Jijun Tang","orcid":"https://orcid.org/0000-0002-6377-536X"},"institutions":[{"id":"https://openalex.org/I155781252","display_name":"University of South Carolina","ror":"https://ror.org/02b6qw903","country_code":"US","type":"education","lineage":["https://openalex.org/I155781252"]},{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210145761","display_name":"Shenzhen Institutes of Advanced Technology","ror":"https://ror.org/04gh4er46","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210145761"]}],"countries":["CN","US"],"is_corresponding":false,"raw_author_name":"Jijun Tang","raw_affiliation_strings":["Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen, Guangdong, China","Department of Computer Science and Engineering, University of South Carolina, Columbia, SC, USA"],"raw_orcid":"https://orcid.org/0000-0002-6377-536X","affiliations":[{"raw_affiliation_string":"Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen, Guangdong, China","institution_ids":["https://openalex.org/I4210145761","https://openalex.org/I19820366"]},{"raw_affiliation_string":"Department of Computer Science and Engineering, University of South Carolina, Columbia, SC, USA","institution_ids":["https://openalex.org/I155781252"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009768568","display_name":"Zhijun Liao","orcid":"https://orcid.org/0000-0002-7034-8657"},"institutions":[{"id":"https://openalex.org/I129708740","display_name":"Fujian Medical University","ror":"https://ror.org/050s6ns64","country_code":"CN","type":"education","lineage":["https://openalex.org/I129708740"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhijun Liao","raw_affiliation_strings":["School of Basic Medical Sciences, Fujian Medical University, Fuzhou, Fujian, China"],"raw_orcid":"https://orcid.org/0000-0002-7034-8657","affiliations":[{"raw_affiliation_string":"School of Basic Medical Sciences, Fujian Medical University, Fuzhou, Fujian, China","institution_ids":["https://openalex.org/I129708740"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5055627037","display_name":"Shengyong Chen","orcid":"https://orcid.org/0000-0002-6705-3831"},"institutions":[{"id":"https://openalex.org/I136765683","display_name":"Tianjin University of Technology","ror":"https://ror.org/00zbe0w13","country_code":"CN","type":"education","lineage":["https://openalex.org/I136765683"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shengyong Chen","raw_affiliation_strings":["School of Computer Science and Engineering, Tianjin University of Technology, Tianjin, China","Engineering Research Center of Learning-Based Intelligent System, Ministry of Education, Tianjin, China"],"raw_orcid":"https://orcid.org/0000-0002-6705-3831","affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Tianjin University of Technology, Tianjin, China","institution_ids":["https://openalex.org/I136765683"]},{"raw_affiliation_string":"Engineering Research Center of Learning-Based Intelligent System, Ministry of Education, Tianjin, China","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":2.4049,"has_fulltext":false,"cited_by_count":11,"citation_normalized_percentile":{"value":0.89046404,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"28","issue":"4","first_page":"1937","last_page":"1948"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10515","display_name":"Cancer-related molecular mechanisms research","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/T10515","display_name":"Cancer-related molecular mechanisms research","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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9959999918937683,"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/T11482","display_name":"RNA modifications and cancer","score":0.9950000047683716,"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":0.71038818359375},{"id":"https://openalex.org/keywords/kernel","display_name":"Kernel (algebra)","score":0.5609992146492004},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.5282309055328369},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.43386247754096985},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.384888231754303},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.36259204149246216},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.2614303529262543},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.1697273850440979}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.71038818359375},{"id":"https://openalex.org/C74193536","wikidata":"https://www.wikidata.org/wiki/Q574844","display_name":"Kernel (algebra)","level":2,"score":0.5609992146492004},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.5282309055328369},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.43386247754096985},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.384888231754303},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.36259204149246216},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.2614303529262543},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.1697273850440979},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","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":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","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":true},{"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":"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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"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":"Q000235","qualifier_name":"genetics","is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1109/jbhi.2023.3286917","is_oa":false,"landing_page_url":"https://doi.org/10.1109/jbhi.2023.3286917","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:37327093","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37327093","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":[{"score":0.47999998927116394,"display_name":"Responsible consumption and production","id":"https://metadata.un.org/sdg/12"}],"awards":[{"id":"https://openalex.org/G2477080798","display_name":null,"funder_award_id":"2020J01610","funder_id":"https://openalex.org/F4320321878","funder_display_name":"Natural Science Foundation of Fujian Province"},{"id":"https://openalex.org/G3739962563","display_name":null,"funder_award_id":"62106175","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G445844430","display_name":null,"funder_award_id":"202210060108","funder_id":"https://openalex.org/F4320317442","funder_display_name":"Tianjin University of Technology"},{"id":"https://openalex.org/G517076515","display_name":"\u809d\u7ec6\u80de\u764c\u86cb\u767d\u8d28\u76f8\u4e92\u4f5c\u7528\u4e2d\u7684\u7ebf\u6027\u77ed\u6a21\u4f53\u8bc6\u522b\u7814\u7a76","funder_award_id":"62072107","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320317442","display_name":"Tianjin University of Technology","ror":"https://ror.org/00zbe0w13"},{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320321878","display_name":"Natural Science Foundation of Fujian Province","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":58,"referenced_works":["https://openalex.org/W1974350437","https://openalex.org/W1979906856","https://openalex.org/W1982267716","https://openalex.org/W2003723466","https://openalex.org/W2024628274","https://openalex.org/W2036956828","https://openalex.org/W2042281163","https://openalex.org/W2052938279","https://openalex.org/W2065837524","https://openalex.org/W2087064593","https://openalex.org/W2099946731","https://openalex.org/W2135974317","https://openalex.org/W2146520012","https://openalex.org/W2153838454","https://openalex.org/W2155632266","https://openalex.org/W2156125289","https://openalex.org/W2165928787","https://openalex.org/W2169777381","https://openalex.org/W2256119113","https://openalex.org/W2256799280","https://openalex.org/W2295598076","https://openalex.org/W2341336811","https://openalex.org/W2519887557","https://openalex.org/W2604388535","https://openalex.org/W2614461365","https://openalex.org/W2752850911","https://openalex.org/W2766653916","https://openalex.org/W2771019114","https://openalex.org/W2776574140","https://openalex.org/W2894934545","https://openalex.org/W2904828342","https://openalex.org/W2908867979","https://openalex.org/W2911831821","https://openalex.org/W2913768779","https://openalex.org/W2919857162","https://openalex.org/W2939351159","https://openalex.org/W3009548091","https://openalex.org/W3021002099","https://openalex.org/W3081571942","https://openalex.org/W3084754935","https://openalex.org/W3112802026","https://openalex.org/W3115880421","https://openalex.org/W3123024604","https://openalex.org/W3136042383","https://openalex.org/W3198879735","https://openalex.org/W3200563416","https://openalex.org/W3202143517","https://openalex.org/W3210159709","https://openalex.org/W3212406624","https://openalex.org/W4205193489","https://openalex.org/W4213205106","https://openalex.org/W4213281931","https://openalex.org/W4229068720","https://openalex.org/W4285405240","https://openalex.org/W4294052446","https://openalex.org/W4297263351","https://openalex.org/W4308955971","https://openalex.org/W6750729320"],"related_works":["https://openalex.org/W3188962172","https://openalex.org/W1493568480","https://openalex.org/W2772917594","https://openalex.org/W4312825515","https://openalex.org/W4306742369","https://openalex.org/W4385967523","https://openalex.org/W4303457083","https://openalex.org/W2131146434","https://openalex.org/W2033914206","https://openalex.org/W2042327336"],"abstract_inverted_index":{"The":[0,167,204],"complexes":[1],"of":[2,19,25,29,50,62,94,122,141,145,225,231,255,261],"long":[3],"non-coding":[4],"RNAs":[5],"bound":[6],"to":[7,178,191],"proteins":[8],"can":[9,136,170],"be":[10,137,171],"involved":[11],"in":[12,22,83,151,155],"regulating":[13],"life":[14],"activities":[15],"at":[16],"various":[17],"stages":[18],"organisms.":[20],"However,":[21],"the":[23,26,48,63,97,102,115,120,123,131,142,146,156,176,193,209,247],"face":[24],"growing":[27],"number":[28],"lncRNAs":[30,98,183],"and":[31,44,75,99,110,158,184,197,201,227,257],"proteins,":[32],"verifying":[33],"LncRNA-Protein":[34,69],"Interactions":[35,70],"(LPI)":[36],"based":[37,71],"on":[38,72,199,214],"traditional":[39],"biological":[40],"experiments":[41],"is":[42],"time-consuming":[43],"laborious.":[45],"Therefore,":[46],"with":[47,127,217,238],"improvement":[49],"computing":[51],"power,":[52],"predicting":[53],"LPI":[54,129,147],"has":[55,80,221,245],"met":[56],"new":[57],"development":[58],"opportunity.":[59],"In":[60],"virtue":[61],"state-of-the-art":[64,248],"works,":[65,249],"a":[66,162,215],"framework":[67],"called":[68],"Kernel":[73],"Combinations":[74],"Graph":[76,164],"Convolutional":[77,165],"Networks":[78],"(LPI-KCGCN)":[79],"been":[81],"proposed":[82],"this":[84],"article.":[85],"We":[86],"first":[87],"construct":[88],"kernel":[89,117],"matrices":[90,118,181],"by":[91,174],"taking":[92],"advantage":[93],"extracting":[95,152],"both":[96],"protein":[100,159],"concerning":[101],"sequence":[103,105],"features,":[104,107,109],"similarity":[106,133],"expression":[108],"gene":[111],"ontology.":[112],"Then":[113],"reconstruct":[114],"existent":[116],"as":[119,139],"input":[121],"next":[124],"step.":[125],"Combined":[126],"known":[128],"interactions,":[130],"reconstructed":[132],"matrices,":[134],"which":[135,250],"used":[138],"features":[140],"topology":[143],"map":[144],"network,":[148],"are":[149,189],"exploited":[150],"potential":[153],"representations":[154],"lncRNA":[157],"space":[160],"using":[161],"two-layer":[163],"Network.":[166],"predicted":[168],"matrix":[169],"finally":[172],"obtained":[173],"training":[175],"network":[177],"produce":[179],"scoring":[180],"w.r.t.":[182],"proteins.":[185],"Different":[186],"LPI-KCGCN":[187,243],"variants":[188],"ensemble":[190],"derive":[192],"final":[194],"prediction":[195],"results":[196],"testify":[198],"balanced":[200],"unbalanced":[202,236],"datasets.":[203],"5-fold":[205],"cross-validation":[206],"shows":[207],"that":[208],"optimal":[210],"feature":[211],"information":[212],"combination":[213],"dataset":[216,237],"15.5%":[218],"positive":[219,241],"samples":[220],"an":[222,228,252,258],"AUC":[223,253],"value":[224,230,254,260],"0.9714":[226],"AUPR":[229,259],"0.9216.":[232],"On":[233],"another":[234],"highly":[235],"only":[239],"5%":[240],"samples,":[242],"also":[244],"outperformed":[246],"achieved":[251],"0.9907":[256],"0.9267.":[262]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":6},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":1}],"updated_date":"2026-03-27T05:58:40.876381","created_date":"2025-10-10T00:00:00"}
