{"id":"https://openalex.org/W4213235856","doi":"https://doi.org/10.1093/bioinformatics/btac100","title":"Pre-training graph neural networks for link prediction in biomedical networks","display_name":"Pre-training graph neural networks for link prediction in biomedical networks","publication_year":2022,"publication_date":"2022-02-14","ids":{"openalex":"https://openalex.org/W4213235856","doi":"https://doi.org/10.1093/bioinformatics/btac100","pmid":"https://pubmed.ncbi.nlm.nih.gov/35171981"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btac100","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btac100","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/38/8/2254/49009728/btac100.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/38/8/2254/49009728/btac100.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5066627747","display_name":"Yahui Long","orcid":"https://orcid.org/0000-0002-2765-3007"},"institutions":[{"id":"https://openalex.org/I115228651","display_name":"Agency for Science, Technology and Research","ror":"https://ror.org/036wvzt09","country_code":"SG","type":"government","lineage":["https://openalex.org/I115228651"]},{"id":"https://openalex.org/I2800824516","display_name":"Singapore Immunology Network","ror":"https://ror.org/03vmmgg57","country_code":"SG","type":"facility","lineage":["https://openalex.org/I115228651","https://openalex.org/I2800824516","https://openalex.org/I2801752549"]}],"countries":["SG"],"is_corresponding":false,"raw_author_name":"Yahui Long","raw_affiliation_strings":["Singapore Immunology Network (SIgN), Agency for Science, Technology and Research , Singapore, Singapore"],"raw_orcid":"https://orcid.org/0000-0002-2765-3007","affiliations":[{"raw_affiliation_string":"Singapore Immunology Network (SIgN), Agency for Science, Technology and Research , Singapore, Singapore","institution_ids":["https://openalex.org/I2800824516","https://openalex.org/I115228651"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100340964","display_name":"Min Wu","orcid":"https://orcid.org/0000-0003-0977-3600"},"institutions":[{"id":"https://openalex.org/I115228651","display_name":"Agency for Science, Technology and Research","ror":"https://ror.org/036wvzt09","country_code":"SG","type":"government","lineage":["https://openalex.org/I115228651"]},{"id":"https://openalex.org/I3005327000","display_name":"Institute for Infocomm Research","ror":"https://ror.org/053rfa017","country_code":"SG","type":"facility","lineage":["https://openalex.org/I115228651","https://openalex.org/I3005327000","https://openalex.org/I91275662"]}],"countries":["SG"],"is_corresponding":false,"raw_author_name":"Min Wu","raw_affiliation_strings":["Institute for Infocomm Research, Agency for Science, Technology and Research , Singapore, Singapore"],"raw_orcid":"https://orcid.org/0000-0003-0977-3600","affiliations":[{"raw_affiliation_string":"Institute for Infocomm Research, Agency for Science, Technology and Research , Singapore, Singapore","institution_ids":["https://openalex.org/I3005327000","https://openalex.org/I115228651"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072988055","display_name":"Yong Liu","orcid":"https://orcid.org/0000-0001-9031-9696"},"institutions":[{"id":"https://openalex.org/I4210092122","display_name":"BC Research (Canada)","ror":"https://ror.org/00dr4nw61","country_code":"CA","type":"facility","lineage":["https://openalex.org/I4210092122"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Yong Liu","raw_affiliation_strings":["Joint NTU-UBC Research Centre of Excellence in Active Living for the Elderly , Singapore, Singapore"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Joint NTU-UBC Research Centre of Excellence in Active Living for the Elderly , Singapore, Singapore","institution_ids":["https://openalex.org/I4210092122"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055103025","display_name":"Yuan Fang","orcid":"https://orcid.org/0000-0002-4265-5289"},"institutions":[{"id":"https://openalex.org/I79891267","display_name":"Singapore Management University","ror":"https://ror.org/050qmg959","country_code":"SG","type":"education","lineage":["https://openalex.org/I79891267"]}],"countries":["SG"],"is_corresponding":false,"raw_author_name":"Yuan Fang","raw_affiliation_strings":["School of Information Systems, Singapore Management University , 178902 Singapore, Singapore"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Information Systems, Singapore Management University , 178902 Singapore, Singapore","institution_ids":["https://openalex.org/I79891267"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027208445","display_name":"Chee Keong Kwoh","orcid":"https://orcid.org/0000-0002-8547-6387"},"institutions":[{"id":"https://openalex.org/I172675005","display_name":"Nanyang Technological University","ror":"https://ror.org/02e7b5302","country_code":"SG","type":"education","lineage":["https://openalex.org/I172675005"]}],"countries":["SG"],"is_corresponding":false,"raw_author_name":"Chee Keong Kwoh","raw_affiliation_strings":["School of Computer Science and Engineering, Nanyang Technological University , Singapore, Singapore"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Nanyang Technological University , Singapore, Singapore","institution_ids":["https://openalex.org/I172675005"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102766473","display_name":"Jinmiao Chen","orcid":"https://orcid.org/0000-0001-7547-6423"},"institutions":[{"id":"https://openalex.org/I115228651","display_name":"Agency for Science, Technology and Research","ror":"https://ror.org/036wvzt09","country_code":"SG","type":"government","lineage":["https://openalex.org/I115228651"]},{"id":"https://openalex.org/I2800824516","display_name":"Singapore Immunology Network","ror":"https://ror.org/03vmmgg57","country_code":"SG","type":"facility","lineage":["https://openalex.org/I115228651","https://openalex.org/I2800824516","https://openalex.org/I2801752549"]}],"countries":["SG"],"is_corresponding":false,"raw_author_name":"Jinmiao Chen","raw_affiliation_strings":["Singapore Immunology Network (SIgN), Agency for Science, Technology and Research , Singapore, Singapore"],"raw_orcid":"https://orcid.org/0000-0001-7547-6423","affiliations":[{"raw_affiliation_string":"Singapore Immunology Network (SIgN), Agency for Science, Technology and Research , Singapore, Singapore","institution_ids":["https://openalex.org/I2800824516","https://openalex.org/I115228651"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026469278","display_name":"Jiawei Luo","orcid":"https://orcid.org/0000-0003-2385-8272"},"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":true,"raw_author_name":"Jiawei Luo","raw_affiliation_strings":["College of Computer Science and Electronic Engineering, Hunan University , Changsha, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Electronic Engineering, Hunan University , Changsha, China","institution_ids":["https://openalex.org/I16609230"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100418684","display_name":"Xiaoli Li","orcid":"https://orcid.org/0000-0002-0762-6562"},"institutions":[{"id":"https://openalex.org/I115228651","display_name":"Agency for Science, Technology and Research","ror":"https://ror.org/036wvzt09","country_code":"SG","type":"government","lineage":["https://openalex.org/I115228651"]},{"id":"https://openalex.org/I3005327000","display_name":"Institute for Infocomm Research","ror":"https://ror.org/053rfa017","country_code":"SG","type":"facility","lineage":["https://openalex.org/I115228651","https://openalex.org/I3005327000","https://openalex.org/I91275662"]}],"countries":["SG"],"is_corresponding":true,"raw_author_name":"Xiaoli Li","raw_affiliation_strings":["Institute for Infocomm Research, Agency for Science, Technology and Research , Singapore, Singapore"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Infocomm Research, Agency for Science, Technology and Research , Singapore, Singapore","institution_ids":["https://openalex.org/I3005327000","https://openalex.org/I115228651"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5026469278","https://openalex.org/A5100418684"],"corresponding_institution_ids":["https://openalex.org/I115228651","https://openalex.org/I16609230","https://openalex.org/I3005327000"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":7.2189,"has_fulltext":true,"cited_by_count":90,"citation_normalized_percentile":{"value":0.98244413,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":100},"biblio":{"volume":"38","issue":"8","first_page":"2254","last_page":"2262"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.47290000319480896,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.47290000319480896,"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/T11273","display_name":"Advanced Graph Neural Networks","score":0.3928999900817871,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.08860000222921371,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8285790681838989},{"id":"https://openalex.org/keywords/initialization","display_name":"Initialization","score":0.7382447123527527},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.5929785370826721},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5784398317337036},{"id":"https://openalex.org/keywords/convolutional-neural-network","display_name":"Convolutional neural network","score":0.5272091031074524},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.5090391039848328},{"id":"https://openalex.org/keywords/artificial-neural-network","display_name":"Artificial neural network","score":0.4865354597568512},{"id":"https://openalex.org/keywords/node","display_name":"Node (physics)","score":0.48052486777305603},{"id":"https://openalex.org/keywords/encoder","display_name":"Encoder","score":0.4325050413608551},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.4121853709220886},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3958663046360016},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.20761090517044067}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8285790681838989},{"id":"https://openalex.org/C114466953","wikidata":"https://www.wikidata.org/wiki/Q6034165","display_name":"Initialization","level":2,"score":0.7382447123527527},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.5929785370826721},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5784398317337036},{"id":"https://openalex.org/C81363708","wikidata":"https://www.wikidata.org/wiki/Q17084460","display_name":"Convolutional neural network","level":2,"score":0.5272091031074524},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.5090391039848328},{"id":"https://openalex.org/C50644808","wikidata":"https://www.wikidata.org/wiki/Q192776","display_name":"Artificial neural network","level":2,"score":0.4865354597568512},{"id":"https://openalex.org/C62611344","wikidata":"https://www.wikidata.org/wiki/Q1062658","display_name":"Node (physics)","level":2,"score":0.48052486777305603},{"id":"https://openalex.org/C118505674","wikidata":"https://www.wikidata.org/wiki/Q42586063","display_name":"Encoder","level":2,"score":0.4325050413608551},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.4121853709220886},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3958663046360016},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.20761090517044067},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0},{"id":"https://openalex.org/C66938386","wikidata":"https://www.wikidata.org/wiki/Q633538","display_name":"Structural engineering","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000076722","descriptor_name":"Drug Development","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000076722","descriptor_name":"Drug Development","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000076722","descriptor_name":"Drug Development","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":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","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":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btac100","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btac100","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/38/8/2254/49009728/btac100.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:35171981","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35171981","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:ink.library.smu.edu.sg:sis_research-8161","is_oa":true,"landing_page_url":"https://ink.library.smu.edu.sg/sis_research/7158","pdf_url":null,"source":{"id":"https://openalex.org/S4306401925","display_name":"Singapore Management University Institutional Knowledge (InK) (Singapore Management University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I79891267","host_organization_name":"Singapore Management University","host_organization_lineage":["https://openalex.org/I79891267"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"https://doi.org/10.1093/bioinformatics/btac100","raw_type":"Journal Article"},{"id":"pmh:oai:dr.ntu.edu.sg:10356/162781","is_oa":false,"landing_page_url":"https://hdl.handle.net/10356/162781","pdf_url":null,"source":{"id":"https://openalex.org/S4306402609","display_name":"DR-NTU (Nanyang Technological University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I172675005","host_organization_name":"Nanyang Technological University","host_organization_lineage":["https://openalex.org/I172675005"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Journal Article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btac100","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btac100","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/38/8/2254/49009728/btac100.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.49000000953674316,"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3"}],"awards":[{"id":"https://openalex.org/G1342612824","display_name":"MicroRNA\u5bf9\u57fa\u56e0\u7684\u8c03\u63a7\u4f5c\u7528\u53ca\u5176\u4e0e\u75be\u75c5\u5173\u8054\u5173\u7cfb\u7684\u8ba1\u7b97\u65b9\u6cd5\u7814\u7a76","funder_award_id":"61873089","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6549098544","display_name":null,"funder_award_id":"62032007","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/W4213235856.pdf","grobid_xml":"https://content.openalex.org/works/W4213235856.grobid-xml"},"referenced_works_count":48,"referenced_works":["https://openalex.org/W1895317372","https://openalex.org/W2145287259","https://openalex.org/W2256553158","https://openalex.org/W2433743436","https://openalex.org/W2462108616","https://openalex.org/W2512938483","https://openalex.org/W2567465856","https://openalex.org/W2607497028","https://openalex.org/W2765950793","https://openalex.org/W2767891136","https://openalex.org/W2785947426","https://openalex.org/W2799307902","https://openalex.org/W2809363952","https://openalex.org/W2896457183","https://openalex.org/W2899788782","https://openalex.org/W2901312953","https://openalex.org/W2911932738","https://openalex.org/W2917858269","https://openalex.org/W2952522777","https://openalex.org/W2962946486","https://openalex.org/W2963277165","https://openalex.org/W2971769670","https://openalex.org/W2977707586","https://openalex.org/W2995178483","https://openalex.org/W2998496395","https://openalex.org/W2999481648","https://openalex.org/W3009246021","https://openalex.org/W3013279271","https://openalex.org/W3018980093","https://openalex.org/W3037489518","https://openalex.org/W3096561213","https://openalex.org/W3116604690","https://openalex.org/W3131175301","https://openalex.org/W3133943662","https://openalex.org/W3136918052","https://openalex.org/W3145736512","https://openalex.org/W3161372396","https://openalex.org/W3174146526","https://openalex.org/W3197149044","https://openalex.org/W3198879735","https://openalex.org/W3198971962","https://openalex.org/W3209882608","https://openalex.org/W4200110750","https://openalex.org/W6718962110","https://openalex.org/W6754884518","https://openalex.org/W6755207826","https://openalex.org/W6767957595","https://openalex.org/W6797206227"],"related_works":["https://openalex.org/W3204184292","https://openalex.org/W3176564347","https://openalex.org/W2355833770","https://openalex.org/W1985458517","https://openalex.org/W3031039437","https://openalex.org/W183202219","https://openalex.org/W4226493464","https://openalex.org/W3133861977","https://openalex.org/W2951211570","https://openalex.org/W3103566983"],"abstract_inverted_index":{"MOTIVATION:":[0],"Graphs":[1],"or":[2],"networks":[3,26,50],"are":[4,177,255,263],"widely":[5],"utilized":[6,54],"to":[7,83,113,140,158],"model":[8,191],"the":[9,31,65,161,166,171,174,222,233,238,242],"interactions":[10],"between":[11],"different":[12,70,94,115],"entities":[13],"(e.g.":[14],"proteins,":[15],"drugs,":[16],"etc.)":[17],"for":[18,29,45,55,93,118,143,190,225],"biomedical":[19,25,60,122],"applications.":[20],"Predicting":[21],"potential":[22],"interactions/links":[23],"in":[24,58,121,170,193],"is":[27,81],"important":[28],"understanding":[30],"pathological":[32],"mechanisms":[33],"of":[34,245],"various":[35,59],"complex":[36],"human":[37],"diseases,":[38],"as":[39,41],"well":[40],"screening":[42],"compound":[43],"targets":[44],"drug":[46],"discovery.":[47],"Graph":[48,107],"neural":[49,133],"(GNNs)":[51],"have":[52,198],"been":[53,199],"link":[56,95,119,204],"prediction":[57,96,120,205,211,227],"networks,":[61],"which":[62],"rely":[63],"on":[64,180,201],"node":[66,162,175],"features":[67,92,142,163,176,186,235],"extracted":[68],"from":[69,146],"data":[71,87,116,262],"sources,":[72],"e.g.":[73],"sequence,":[74],"structure":[75,149],"and":[76,89,135,148,212,228,240,253],"network":[77,134,138],"data.":[78,150],"However,":[79],"it":[80],"challenging":[82],"effectively":[84,159],"integrate":[85,114],"these":[86],"sources":[88,117],"automatically":[90],"extract":[91],"tasks.":[97,183,195],"RESULTS:":[98],"In":[99,231],"this":[100],"article,":[101],"we":[102,125,152],"propose":[103,154],"a":[104,155],"novel":[105],"Pre-Training":[106],"Neural":[108],"Networks-based":[109],"framework":[110],"named":[111],"PT-GNN":[112,220],"networks.":[123],"First,":[124],"design":[126],"expressive":[127],"deep":[128],"learning":[129],"methods":[130,224],"[e.g.":[131],"convolutional":[132,137],"graph":[136,181],"(GCN)]":[139],"learn":[141],"individual":[144],"nodes":[145,169],"sequence":[147],"Second,":[151],"further":[153],"GCN-based":[156],"encoder":[157],"refine":[160],"by":[164],"modelling":[165],"dependencies":[167],"among":[168],"network.":[172],"Third,":[173],"pre-trained":[178,185,234],"based":[179],"reconstruction":[182],"The":[184],"can":[187],"be":[188],"used":[189],"initialization":[192],"downstream":[194],"Extensive":[196],"experiments":[197],"conducted":[200],"two":[202],"critical":[203],"tasks,":[206],"i.e.":[207],"synthetic":[208],"lethality":[209],"(SL)":[210],"drug-target":[213],"interaction":[214],"(DTI)":[215],"prediction.":[216,230],"Experimental":[217],"results":[218],"demonstrate":[219],"outperforms":[221],"state-of-the-art":[223],"SL":[226],"DTI":[229],"addition,":[232],"benefit":[236],"improving":[237],"performance":[239],"reduce":[241],"training":[243],"time":[244],"existing":[246],"models.":[247],"AVAILABILITY":[248],"AND":[249],"IMPLEMENTATION:":[250],"Python":[251],"codes":[252],"dataset":[254],"available":[256,264],"at:":[257],"https://github.com/longyahui/PT-GNN.":[258],"SUPPLEMENTARY":[259],"INFORMATION:":[260],"Supplementary":[261],"at":[265],"Bioinformatics":[266],"online.":[267]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":31},{"year":2024,"cited_by_count":28},{"year":2023,"cited_by_count":24},{"year":2022,"cited_by_count":3}],"updated_date":"2026-06-15T08:34:33.830935","created_date":"2025-10-10T00:00:00"}