{"id":"https://openalex.org/W2804186728","doi":"https://doi.org/10.1186/s12859-018-2163-9","title":"Neural networks for link prediction in realistic biomedical graphs: a multi-dimensional evaluation of graph embedding-based approaches","display_name":"Neural networks for link prediction in realistic biomedical graphs: a multi-dimensional evaluation of graph embedding-based approaches","publication_year":2018,"publication_date":"2018-05-21","ids":{"openalex":"https://openalex.org/W2804186728","doi":"https://doi.org/10.1186/s12859-018-2163-9","mag":"2804186728","pmid":"https://pubmed.ncbi.nlm.nih.gov/29783926"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-018-2163-9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2163-9","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2163-9","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","datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2163-9","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5090932014","display_name":"Gamal Crichton","orcid":"https://orcid.org/0000-0002-3036-0811"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Gamal Crichton","raw_affiliation_strings":["Language Technology Laboratory, TAL, University of Cambridge, 9 West Road, Cambridge, CB39DB, UK. gkoc2@cam.ac.uk","Language Technology Laboratory, TAL, University of Cambridge, 9 West Road, Cambridge, CB39DB, UK"],"raw_orcid":"https://orcid.org/0000-0002-3036-0811","affiliations":[{"raw_affiliation_string":"Language Technology Laboratory, TAL, University of Cambridge, 9 West Road, Cambridge, CB39DB, UK. gkoc2@cam.ac.uk","institution_ids":["https://openalex.org/I241749"]},{"raw_affiliation_string":"Language Technology Laboratory, TAL, University of Cambridge, 9 West Road, Cambridge, CB39DB, UK","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103324245","display_name":"Yufan Guo","orcid":"https://orcid.org/0000-0002-1527-0383"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Yufan Guo","raw_affiliation_strings":["Language Technology Laboratory, TAL, University of Cambridge, 9 West Road, Cambridge, CB39DB, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Language Technology Laboratory, TAL, University of Cambridge, 9 West Road, Cambridge, CB39DB, UK","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066925770","display_name":"Sampo Pyysalo","orcid":"https://orcid.org/0000-0002-6279-5000"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Sampo Pyysalo","raw_affiliation_strings":["Language Technology Laboratory, TAL, University of Cambridge, 9 West Road, Cambridge, CB39DB, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Language Technology Laboratory, TAL, University of Cambridge, 9 West Road, Cambridge, CB39DB, UK","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5081393566","display_name":"Anna Korhonen","orcid":"https://orcid.org/0000-0002-3692-3144"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Anna Korhonen","raw_affiliation_strings":["Language Technology Laboratory, TAL, University of Cambridge, 9 West Road, Cambridge, CB39DB, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Language Technology Laboratory, TAL, University of Cambridge, 9 West Road, Cambridge, CB39DB, UK","institution_ids":["https://openalex.org/I241749"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5090932014"],"corresponding_institution_ids":["https://openalex.org/I241749"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1647,"currency":"EUR","value_usd":1776},"fwci":4.5302,"has_fulltext":true,"cited_by_count":85,"citation_normalized_percentile":{"value":0.95995575,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"19","issue":"1","first_page":"176","last_page":"176"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.5011000037193298,"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":0.5011000037193298,"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":0.34279999136924744,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.05730000138282776,"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":0.7403912544250488},{"id":"https://openalex.org/keywords/artificial-neural-network","display_name":"Artificial neural network","score":0.6363381147384644},{"id":"https://openalex.org/keywords/link","display_name":"Link (geometry)","score":0.5268099308013916},{"id":"https://openalex.org/keywords/node","display_name":"Node (physics)","score":0.5013189315795898},{"id":"https://openalex.org/keywords/classifier","display_name":"Classifier (UML)","score":0.46260154247283936},{"id":"https://openalex.org/keywords/embedding","display_name":"Embedding","score":0.4620285630226135},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.4552740454673767},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.4531358778476715},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.44973766803741455},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4326857328414917},{"id":"https://openalex.org/keywords/graph-embedding","display_name":"Graph embedding","score":0.4243476986885071},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.3507688045501709},{"id":"https://openalex.org/keywords/computer-network","display_name":"Computer network","score":0.09526783227920532}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7403912544250488},{"id":"https://openalex.org/C50644808","wikidata":"https://www.wikidata.org/wiki/Q192776","display_name":"Artificial neural network","level":2,"score":0.6363381147384644},{"id":"https://openalex.org/C2778753846","wikidata":"https://www.wikidata.org/wiki/Q6554239","display_name":"Link (geometry)","level":2,"score":0.5268099308013916},{"id":"https://openalex.org/C62611344","wikidata":"https://www.wikidata.org/wiki/Q1062658","display_name":"Node (physics)","level":2,"score":0.5013189315795898},{"id":"https://openalex.org/C95623464","wikidata":"https://www.wikidata.org/wiki/Q1096149","display_name":"Classifier (UML)","level":2,"score":0.46260154247283936},{"id":"https://openalex.org/C41608201","wikidata":"https://www.wikidata.org/wiki/Q980509","display_name":"Embedding","level":2,"score":0.4620285630226135},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.4552740454673767},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.4531358778476715},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.44973766803741455},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4326857328414917},{"id":"https://openalex.org/C75564084","wikidata":"https://www.wikidata.org/wiki/Q5597085","display_name":"Graph embedding","level":3,"score":0.4243476986885071},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.3507688045501709},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.09526783227920532},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"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":"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":"D000465","descriptor_name":"Algorithms","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":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D063369","descriptor_name":"Knowledge Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D063369","descriptor_name":"Knowledge Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D063369","descriptor_name":"Knowledge Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D063369","descriptor_name":"Knowledge Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":9,"locations":[{"id":"doi:10.1186/s12859-018-2163-9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2163-9","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2163-9","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:29783926","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29783926","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:f170f45424cb467e8b9ca399994c5c92","is_oa":true,"landing_page_url":"https://doaj.org/article/f170f45424cb467e8b9ca399994c5c92","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 19, Iss 1, Pp 1-11 (2018)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:4964891","is_oa":true,"landing_page_url":"http://europepmc.org/pmc/articles/PMC5963080","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:5963080","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5963080","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"},{"id":"pmh:oai:www.repository.cam.ac.uk:1810/276038","is_oa":true,"landing_page_url":"https://www.repository.cam.ac.uk/handle/1810/276038","pdf_url":null,"source":{"id":"https://openalex.org/S4306401777","display_name":"Apollo (University of Cambridge)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I241749","host_organization_name":"University of Cambridge","host_organization_lineage":["https://openalex.org/I241749"],"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":null,"raw_type":"Journal Article"},{"id":"pmh:oai:www.repository.cam.ac.uk:1810/278554","is_oa":true,"landing_page_url":"https://www.repository.cam.ac.uk/handle/1810/278554","pdf_url":null,"source":{"id":"https://openalex.org/S4306401777","display_name":"Apollo (University of Cambridge)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I241749","host_organization_name":"University of Cambridge","host_organization_lineage":["https://openalex.org/I241749"],"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":null,"raw_type":"Article"},{"id":"doi:10.17863/cam.23319","is_oa":true,"landing_page_url":"https://doi.org/10.17863/cam.23319","pdf_url":null,"source":{"id":"https://openalex.org/S7407050737","display_name":"Apollo","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":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"Other"},{"id":"doi:10.17863/cam.25886","is_oa":true,"landing_page_url":"https://doi.org/10.17863/cam.25886","pdf_url":null,"source":{"id":"https://openalex.org/S7407050737","display_name":"Apollo","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","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article-journal"}],"best_oa_location":{"id":"doi:10.1186/s12859-018-2163-9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2163-9","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2163-9","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":[],"awards":[{"id":"https://openalex.org/G2115177841","display_name":null,"funder_award_id":"MR/M013049/1","funder_id":"https://openalex.org/F4320334626","funder_display_name":"Medical Research Council"},{"id":"https://openalex.org/G4293880762","display_name":null,"funder_award_id":"MR/M013049","funder_id":"https://openalex.org/F4320334626","funder_display_name":"Medical Research Council"},{"id":"https://openalex.org/G4498546091","display_name":"Literature-based discovery for cancer biology","funder_award_id":"MR/M013049/1","funder_id":"https://openalex.org/F4320334626","funder_display_name":"Medical Research Council"}],"funders":[{"id":"https://openalex.org/F4320309480","display_name":"Nvidia","ror":"https://ror.org/03jdj4y14"},{"id":"https://openalex.org/F4320321848","display_name":"Cambridge Trust","ror":"https://ror.org/05sprqy15"},{"id":"https://openalex.org/F4320334626","display_name":"Medical Research Council","ror":"https://ror.org/03x94j517"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2804186728.pdf","grobid_xml":"https://content.openalex.org/works/W2804186728.grobid-xml"},"referenced_works_count":38,"referenced_works":["https://openalex.org/W90362830","https://openalex.org/W1529533208","https://openalex.org/W1556758605","https://openalex.org/W1614298861","https://openalex.org/W1665214252","https://openalex.org/W1964670939","https://openalex.org/W1973938657","https://openalex.org/W2037407522","https://openalex.org/W2037933327","https://openalex.org/W2073415627","https://openalex.org/W2091019377","https://openalex.org/W2101234009","https://openalex.org/W2104006813","https://openalex.org/W2107569009","https://openalex.org/W2108069034","https://openalex.org/W2126671570","https://openalex.org/W2136126520","https://openalex.org/W2151498529","https://openalex.org/W2154454189","https://openalex.org/W2154851992","https://openalex.org/W2163485494","https://openalex.org/W2387462954","https://openalex.org/W2393319904","https://openalex.org/W2396100445","https://openalex.org/W2503940607","https://openalex.org/W2604314403","https://openalex.org/W2612872092","https://openalex.org/W2745750801","https://openalex.org/W2768375068","https://openalex.org/W2914874661","https://openalex.org/W2915536738","https://openalex.org/W2949926081","https://openalex.org/W2962756421","https://openalex.org/W2964299987","https://openalex.org/W2977393556","https://openalex.org/W3104097132","https://openalex.org/W3105705953","https://openalex.org/W4232932184"],"related_works":["https://openalex.org/W3036264823","https://openalex.org/W3206528106","https://openalex.org/W2912814903","https://openalex.org/W2123605750","https://openalex.org/W2088740331","https://openalex.org/W3038102983","https://openalex.org/W2950907416","https://openalex.org/W1559483280","https://openalex.org/W2082479932","https://openalex.org/W2932872266"],"abstract_inverted_index":{"BACKGROUND:":[0],"Link":[1],"prediction":[2,18],"in":[3,187],"biomedical":[4,110],"graphs":[5,111,189],"has":[6],"several":[7,40],"important":[8],"applications":[9],"including":[10],"predicting":[11],"Drug-Target":[12],"Interactions":[13],"(DTI),":[14],"Protein-Protein":[15],"Interaction":[16],"(PPI)":[17],"and":[19,63,108,125,141,150,165,186,226,297,325,346],"Literature-Based":[20],"Discovery":[21],"(LBD).":[22],"It":[23],"can":[24],"be":[25],"done":[26,60],"using":[27],"a":[28,102,168,201,300],"classifier":[29],"to":[30,46,54,122,136,160,277,295],"output":[31],"the":[32,129,132,154,177,180,213,255,291,309,315],"probability":[33],"of":[34,101,112,131,138,171,268,274,303],"link":[35,104,134,205],"formation":[36],"between":[37,247],"nodes.":[38],"Recently":[39],"works":[41,58],"have":[42],"used":[43],"neural":[44,55,86,103,133,155,232,240,261,292,331],"networks":[45],"create":[47],"node":[48,96,163],"representations":[49,164],"which":[50,342],"allow":[51],"rich":[52],"inputs":[53,93],"classifiers.":[56],"Preliminary":[57],"were":[59,158,215,235],"on":[61,106,245],"this":[62],"report":[64,142],"promising":[65],"results.":[66],"However":[67],"they":[68,270],"did":[69],"not":[70],"use":[71,296],"realistic":[72],"settings":[73],"like":[74],"time-slicing,":[75],"evaluate":[76],"performances":[77],"with":[78,190,249],"comprehensive":[79],"metrics":[80],"or":[81,84],"explain":[82],"when":[83,153,285],"why":[85],"network":[87,156,233,241,262,293,332],"methods":[88,157,242,263,294],"outperform.":[89],"We":[90,127],"investigated":[91],"how":[92],"from":[94,265],"four":[95],"representation":[97],"algorithms":[98],"affect":[99],"performance":[100,130,143,228,327],"predictor":[105,135],"random-":[107,149],"time-sliced":[109,151],"real-world":[113],"sizes":[114],"(\u223c":[115,183,211],"6":[116],"million":[117],"edges)":[118,185],"containing":[119],"information":[120],"relevant":[121],"DTI,":[123],"PPI":[124],"LBD.":[126],"compared":[128],"those":[137,174,306],"established":[139],"baselines":[140,195],"across":[144,223],"five":[145],"metrics.":[146],"RESULTS:":[147],"In":[148,179],"experiments":[152],"able":[159],"learn":[161],"good":[162],"there":[166,286,298],"was":[167],"negligible":[169,301],"amount":[170,302],"disconnected":[172,193,304],"nodes,":[173,194,231,305,330],"approaches":[175,214,234,307,316,333],"outperformed":[176],"baselines.":[178,310],"smallest":[181],"graph":[182],"15,000":[184],"larger":[188],"approximately":[191],"14%":[192],"such":[196],"as":[197],"Common":[198],"Neighbours":[199],"proved":[200],"justifiable":[202],"choice":[203],"for":[204,290,352],"prediction.":[206],"At":[207,311],"low":[208,312],"recall":[209,221,313,323],"levels":[210,222,314,324],"0.3)":[212],"mostly":[216,318],"equal,":[217],"but":[218,320],"at":[219,229,321,328,337],"higher":[220,322],"all":[224],"nodes":[225,248,338],"average":[227,326],"individual":[230,329],"superior.":[236,335],"Analysis":[237],"showed":[238],"that":[239,284],"performed":[243],"well":[244],"links":[246,350],"no":[250],"previous":[251],"common":[252,340],"neighbours;":[253],"potentially":[254],"most":[256],"interesting":[257],"links.":[258],"Additionally,":[259],"while":[260],"benefit":[264],"large":[266],"amounts":[267,273],"data,":[269],"require":[271],"considerable":[272],"computational":[275],"resources":[276],"utilise":[278],"them.":[279],"CONCLUSIONS:":[280],"Our":[281],"results":[282],"indicate":[283,343],"is":[287],"enough":[288],"data":[289],"are":[299,317,334],"outperform":[308],"equal":[319],"Performance":[336],"without":[339],"neighbours":[341],"more":[344,348],"unexpected":[345],"perhaps":[347],"useful":[349],"account":[351],"this.":[353]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":6},{"year":2023,"cited_by_count":10},{"year":2022,"cited_by_count":11},{"year":2021,"cited_by_count":16},{"year":2020,"cited_by_count":18},{"year":2019,"cited_by_count":19},{"year":2018,"cited_by_count":2}],"updated_date":"2026-07-15T18:14:33.161393","created_date":"2025-10-10T00:00:00"}
