{"id":"https://openalex.org/W4310786017","doi":"https://doi.org/10.1186/s12859-022-05062-6","title":"Long-distance dependency combined multi-hop graph neural networks for protein\u2013protein interactions prediction","display_name":"Long-distance dependency combined multi-hop graph neural networks for protein\u2013protein interactions prediction","publication_year":2022,"publication_date":"2022-12-05","ids":{"openalex":"https://openalex.org/W4310786017","doi":"https://doi.org/10.1186/s12859-022-05062-6","pmid":"https://pubmed.ncbi.nlm.nih.gov/36471248"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-022-05062-6","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-022-05062-6","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-022-05062-6","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-022-05062-6","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5116653527","display_name":"Wen Zhong","orcid":"https://orcid.org/0000-0002-5406-2392"},"institutions":[{"id":"https://openalex.org/I148128674","display_name":"University of Shanghai for Science and Technology","ror":"https://ror.org/00ay9v204","country_code":"CN","type":"education","lineage":["https://openalex.org/I148128674"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Wen Zhong","raw_affiliation_strings":["College of Science, University of Shanghai for Science and Technology, Jungong Road, Shanghai, 200093, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Science, University of Shanghai for Science and Technology, Jungong Road, Shanghai, 200093, China","institution_ids":["https://openalex.org/I148128674"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016915362","display_name":"Changxiang He","orcid":"https://orcid.org/0000-0002-0770-9018"},"institutions":[{"id":"https://openalex.org/I148128674","display_name":"University of Shanghai for Science and Technology","ror":"https://ror.org/00ay9v204","country_code":"CN","type":"education","lineage":["https://openalex.org/I148128674"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Changxiang He","raw_affiliation_strings":["College of Science, University of Shanghai for Science and Technology, Jungong Road, Shanghai, 200093, China. changxiang-he@163.com","College of Science, University of Shanghai for Science and Technology, Jungong Road, Shanghai, 200093, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Science, University of Shanghai for Science and Technology, Jungong Road, Shanghai, 200093, China. changxiang-he@163.com","institution_ids":["https://openalex.org/I148128674"]},{"raw_affiliation_string":"College of Science, University of Shanghai for Science and Technology, Jungong Road, Shanghai, 200093, China","institution_ids":["https://openalex.org/I148128674"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100373724","display_name":"Xiao Chen","orcid":"https://orcid.org/0000-0002-4269-9089"},"institutions":[{"id":"https://openalex.org/I148128674","display_name":"University of Shanghai for Science and Technology","ror":"https://ror.org/00ay9v204","country_code":"CN","type":"education","lineage":["https://openalex.org/I148128674"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chen Xiao","raw_affiliation_strings":["College of Science, University of Shanghai for Science and Technology, Jungong Road, Shanghai, 200093, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Science, University of Shanghai for Science and Technology, Jungong Road, Shanghai, 200093, China","institution_ids":["https://openalex.org/I148128674"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101527886","display_name":"Yuru Liu","orcid":"https://orcid.org/0000-0002-4702-0119"},"institutions":[{"id":"https://openalex.org/I148128674","display_name":"University of Shanghai for Science and Technology","ror":"https://ror.org/00ay9v204","country_code":"CN","type":"education","lineage":["https://openalex.org/I148128674"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yuru Liu","raw_affiliation_strings":["College of Science, University of Shanghai for Science and Technology, Jungong Road, Shanghai, 200093, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Science, University of Shanghai for Science and Technology, Jungong Road, Shanghai, 200093, China","institution_ids":["https://openalex.org/I148128674"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014264919","display_name":"Xiaofei Qin","orcid":"https://orcid.org/0000-0002-0258-5423"},"institutions":[{"id":"https://openalex.org/I148128674","display_name":"University of Shanghai for Science and Technology","ror":"https://ror.org/00ay9v204","country_code":"CN","type":"education","lineage":["https://openalex.org/I148128674"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiaofei Qin","raw_affiliation_strings":["School of Optical-Electrical and Computer Engineering, University of Shanghai for Science and Technology, Jungong Road, Shanghai, 200093, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Optical-Electrical and Computer Engineering, University of Shanghai for Science and Technology, Jungong Road, Shanghai, 200093, China","institution_ids":["https://openalex.org/I148128674"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101836525","display_name":"Zhensheng Yu","orcid":"https://orcid.org/0000-0003-3394-9602"},"institutions":[{"id":"https://openalex.org/I148128674","display_name":"University of Shanghai for Science and Technology","ror":"https://ror.org/00ay9v204","country_code":"CN","type":"education","lineage":["https://openalex.org/I148128674"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhensheng Yu","raw_affiliation_strings":["College of Science, University of Shanghai for Science and Technology, Jungong Road, Shanghai, 200093, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Science, University of Shanghai for Science and Technology, Jungong Road, Shanghai, 200093, China","institution_ids":["https://openalex.org/I148128674"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5016915362"],"corresponding_institution_ids":["https://openalex.org/I148128674"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":1.126,"has_fulltext":true,"cited_by_count":17,"citation_normalized_percentile":{"value":0.77073832,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"23","issue":"1","first_page":"521","last_page":"521"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.7548999786376953,"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":0.7548999786376953,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.16899999976158142,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.03420000150799751,"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":0.6818918585777283},{"id":"https://openalex.org/keywords/artificial-neural-network","display_name":"Artificial neural network","score":0.6283804178237915},{"id":"https://openalex.org/keywords/protein-sequencing","display_name":"Protein sequencing","score":0.603219211101532},{"id":"https://openalex.org/keywords/dependency","display_name":"Dependency (UML)","score":0.4735086262226105},{"id":"https://openalex.org/keywords/dependency-graph","display_name":"Dependency graph","score":0.45319923758506775},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.43234774470329285},{"id":"https://openalex.org/keywords/amino-acid","display_name":"Amino acid","score":0.41387200355529785},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.40271231532096863},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.38163989782333374},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.38109269738197327},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.3521811366081238},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.34384244680404663},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.20853054523468018},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.1353643834590912},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1080368161201477}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6818918585777283},{"id":"https://openalex.org/C50644808","wikidata":"https://www.wikidata.org/wiki/Q192776","display_name":"Artificial neural network","level":2,"score":0.6283804178237915},{"id":"https://openalex.org/C10010492","wikidata":"https://www.wikidata.org/wiki/Q3142557","display_name":"Protein sequencing","level":4,"score":0.603219211101532},{"id":"https://openalex.org/C19768560","wikidata":"https://www.wikidata.org/wiki/Q320727","display_name":"Dependency (UML)","level":2,"score":0.4735086262226105},{"id":"https://openalex.org/C16311509","wikidata":"https://www.wikidata.org/wiki/Q4148050","display_name":"Dependency graph","level":3,"score":0.45319923758506775},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.43234774470329285},{"id":"https://openalex.org/C515207424","wikidata":"https://www.wikidata.org/wiki/Q8066","display_name":"Amino acid","level":2,"score":0.41387200355529785},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.40271231532096863},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.38163989782333374},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.38109269738197327},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.3521811366081238},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.34384244680404663},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.20853054523468018},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.1353643834590912},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1080368161201477}],"mesh":[{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","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":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-022-05062-6","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-022-05062-6","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-022-05062-6","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:36471248","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36471248","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:3bb9bef688674a29b38c9d8b786b26d4","is_oa":true,"landing_page_url":"https://doaj.org/article/3bb9bef688674a29b38c9d8b786b26d4","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 23, Iss 1, Pp 1-21 (2022)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:9724439","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9724439","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":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-022-05062-6","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-022-05062-6","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-022-05062-6","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/8","display_name":"Decent work and economic growth","score":0.4099999964237213}],"awards":[{"id":"https://openalex.org/G3641063112","display_name":null,"funder_award_id":"12271362","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":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4310786017.pdf","grobid_xml":"https://content.openalex.org/works/W4310786017.grobid-xml"},"referenced_works_count":40,"referenced_works":["https://openalex.org/W1920609606","https://openalex.org/W1976937534","https://openalex.org/W2029476889","https://openalex.org/W2037036397","https://openalex.org/W2037433020","https://openalex.org/W2048839385","https://openalex.org/W2065225468","https://openalex.org/W2068749491","https://openalex.org/W2068897525","https://openalex.org/W2071062657","https://openalex.org/W2084619201","https://openalex.org/W2114315281","https://openalex.org/W2128900650","https://openalex.org/W2133102806","https://openalex.org/W2152416668","https://openalex.org/W2152705149","https://openalex.org/W2167869241","https://openalex.org/W2393319904","https://openalex.org/W2405065882","https://openalex.org/W2616246685","https://openalex.org/W2618265628","https://openalex.org/W2767774008","https://openalex.org/W2885583144","https://openalex.org/W2900569176","https://openalex.org/W2912083425","https://openalex.org/W2950411297","https://openalex.org/W2950742983","https://openalex.org/W2957436444","https://openalex.org/W2997680655","https://openalex.org/W3045012301","https://openalex.org/W3108458441","https://openalex.org/W3120712761","https://openalex.org/W3126876258","https://openalex.org/W3127077556","https://openalex.org/W3134169372","https://openalex.org/W3189432583","https://openalex.org/W3202143517","https://openalex.org/W3206731431","https://openalex.org/W3206782361","https://openalex.org/W7067216465"],"related_works":["https://openalex.org/W2327631927","https://openalex.org/W2093568763","https://openalex.org/W1985166372","https://openalex.org/W2003096546","https://openalex.org/W2430210575","https://openalex.org/W4289354592","https://openalex.org/W2099112646","https://openalex.org/W2165069859","https://openalex.org/W2112258778","https://openalex.org/W2626477053"],"abstract_inverted_index":{"BACKGROUND:":[0],"Protein-protein":[1],"interactions":[2],"are":[3,240,282],"widespread":[4],"in":[5,13,56,73,118,128,197,298],"biological":[6],"systems":[7],"and":[8,121,211,242,266,276,284],"play":[9],"an":[10],"important":[11],"role":[12],"cell":[14],"biology.":[15],"Since":[16],"traditional":[17],"laboratory-based":[18],"methods":[19,32,41],"have":[20,37],"some":[21],"drawbacks,":[22],"such":[23],"as":[24],"time-consuming,":[25],"money-consuming,":[26],"etc.,":[27],"a":[28,106,138,201],"large":[29],"number":[30,88],"of":[31,89,91,179,279,301],"based":[33,63],"on":[34,64,262],"deep":[35],"learning":[36],"emerged.":[38],"However,":[39],"these":[40],"do":[42],"not":[43],"take":[44],"into":[45,223],"account":[46],"the":[47,70,87,119,151,156,161,170,177,185,194,229,237,245,259,264,273,277,299],"long-distance":[48],"dependency":[49,113,147],"information":[50,81,114,127,148],"between":[51,115,187],"each":[52],"two":[53,189,224,234,238],"amino":[54,116,163,180,190,215],"acids":[55,117],"sequence.":[57],"In":[58,133,155,287],"addition,":[59],"most":[60],"existing":[61],"models":[62],"graph":[65],"neural":[66,92,140],"networks":[67],"only":[68],"aggregate":[69],"first-order":[71],"neighbors":[72],"protein-protein":[74,129,153,203,250,303],"interaction":[75,130,204],"(PPI)":[76],"network.":[77,131,206],"Although":[78],"multi-order":[79,125],"neighbor":[80,126],"can":[82,109,122],"be":[83],"aggregated":[84],"by":[85,183,199],"increasing":[86],"layers":[90],"network,":[93],"it":[94,101],"is":[95,102],"easy":[96],"to":[97,104,149,175,232,244],"cause":[98],"over-fitting.":[99],"So,":[100],"necessary":[103],"design":[105,160],"network":[107,141,210,213,281],"that":[108,272],"capture":[110,124],"long":[111,145],"distance":[112,146],"sequence":[120,165,217],"directly":[123],"RESULTS:":[132],"this":[134],"study,":[135],"we":[136,159],"propose":[137],"multi-hop":[139],"(LDMGNN)":[142],"model":[143,293],"combining":[144],"predict":[150,248],"multi-label":[152,249,302],"interactions.":[154,251,304],"LDMGNN":[157,257,292],"model,":[158],"protein":[162],"acid":[164,181,216],"encoding":[166],"(PAASE)":[167],"module":[168,275],"with":[169,214,253],"multi-head":[171],"self-attention":[172],"Transformer":[173],"block":[174],"extract":[176],"features":[178,218],"sequences":[182],"calculating":[184],"interdependence":[186],"every":[188],"acids.":[191],"And":[192],"expand":[193],"receptive":[195],"field":[196],"space":[198],"constructing":[200],"two-hop":[202],"(THPPI)":[205],"We":[207],"combine":[208],"PPI":[209],"THPPI":[212,280],"respectively,":[219],"then":[220],"input":[221,243],"them":[222],"identical":[225],"GIN":[226],"blocks":[227],"at":[228],"same":[230],"time":[231],"obtain":[233],"embeddings.":[235],"Next,":[236],"embeddings":[239],"fused":[241],"classifier":[246],"for":[247],"Compared":[252],"other":[254],"state-of-the-art":[255],"methods,":[256],"shows":[258],"best":[260],"performance":[261],"both":[263],"SHS27K":[265],"SHS148k":[267],"datasets.":[268],"Ablation":[269],"experiments":[270],"show":[271],"PAASE":[274],"construction":[278],"feasible":[283],"effective.":[285],"CONCLUSIONS:":[286],"general":[288],"terms,":[289],"our":[290],"proposed":[291],"has":[294],"achieved":[295],"satisfactory":[296],"results":[297],"prediction":[300]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":6},{"year":2024,"cited_by_count":6},{"year":2023,"cited_by_count":1}],"updated_date":"2026-06-15T08:34:33.830935","created_date":"2025-10-10T00:00:00"}
