{"id":"https://openalex.org/W4399940476","doi":"https://doi.org/10.1093/bioinformatics/btae349","title":"HGTDR: Advancing drug repurposing with heterogeneous graph transformers","display_name":"HGTDR: Advancing drug repurposing with heterogeneous graph transformers","publication_year":2024,"publication_date":"2024-06-24","ids":{"openalex":"https://openalex.org/W4399940476","doi":"https://doi.org/10.1093/bioinformatics/btae349","pmid":"https://pubmed.ncbi.nlm.nih.gov/38913860"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btae349","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae349","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae349/58319606/btae349.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","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":"gold","oa_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae349/58319606/btae349.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5098581608","display_name":"Ali Gharizadeh","orcid":"https://orcid.org/0009-0006-5969-116X"},"institutions":[{"id":"https://openalex.org/I133529467","display_name":"Sharif University of Technology","ror":"https://ror.org/024c2fq17","country_code":"IR","type":"education","lineage":["https://openalex.org/I133529467"]}],"countries":["IR"],"is_corresponding":true,"raw_author_name":"Ali Gharizadeh","raw_affiliation_strings":["Department of Computer Engineering, Sharif University of Technology , Tehran, P.O. Box 11155-9517, Iran"],"affiliations":[{"raw_affiliation_string":"Department of Computer Engineering, Sharif University of Technology , Tehran, P.O. Box 11155-9517, Iran","institution_ids":["https://openalex.org/I133529467"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069064010","display_name":"Karim Abbasi","orcid":"https://orcid.org/0000-0003-2135-8864"},"institutions":[{"id":"https://openalex.org/I133529467","display_name":"Sharif University of Technology","ror":"https://ror.org/024c2fq17","country_code":"IR","type":"education","lineage":["https://openalex.org/I133529467"]}],"countries":["IR"],"is_corresponding":false,"raw_author_name":"Karim Abbasi","raw_affiliation_strings":["Department of Computer Engineering, Sharif University of Technology , Tehran, P.O. Box 11155-9517, Iran"],"affiliations":[{"raw_affiliation_string":"Department of Computer Engineering, Sharif University of Technology , Tehran, P.O. Box 11155-9517, Iran","institution_ids":["https://openalex.org/I133529467"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072190061","display_name":"Amin Ghareyazi","orcid":"https://orcid.org/0000-0003-1688-283X"},"institutions":[{"id":"https://openalex.org/I133529467","display_name":"Sharif University of Technology","ror":"https://ror.org/024c2fq17","country_code":"IR","type":"education","lineage":["https://openalex.org/I133529467"]}],"countries":["IR"],"is_corresponding":false,"raw_author_name":"Amin Ghareyazi","raw_affiliation_strings":["Department of Computer Engineering, Sharif University of Technology , Tehran, P.O. Box 11155-9517, Iran"],"affiliations":[{"raw_affiliation_string":"Department of Computer Engineering, Sharif University of Technology , Tehran, P.O. Box 11155-9517, Iran","institution_ids":["https://openalex.org/I133529467"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062246663","display_name":"Mohammad R. K. Mofrad","orcid":"https://orcid.org/0000-0001-7004-4859"},"institutions":[{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mohammad R K Mofrad","raw_affiliation_strings":["Departments of Bioengineering and Mechanical Engineering, University of California , Berkeley, CA, P.O. Box 94720-1740, United States"],"affiliations":[{"raw_affiliation_string":"Departments of Bioengineering and Mechanical Engineering, University of California , Berkeley, CA, P.O. Box 94720-1740, United States","institution_ids":["https://openalex.org/I95457486"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5063512925","display_name":"Hamid R. Rabiee","orcid":"https://orcid.org/0000-0002-9835-4493"},"institutions":[{"id":"https://openalex.org/I133529467","display_name":"Sharif University of Technology","ror":"https://ror.org/024c2fq17","country_code":"IR","type":"education","lineage":["https://openalex.org/I133529467"]}],"countries":["IR"],"is_corresponding":false,"raw_author_name":"Hamid R Rabiee","raw_affiliation_strings":["Department of Computer Engineering, Sharif University of Technology , Tehran, P.O. Box 11155-9517, Iran"],"affiliations":[{"raw_affiliation_string":"Department of Computer Engineering, Sharif University of Technology , Tehran, P.O. Box 11155-9517, Iran","institution_ids":["https://openalex.org/I133529467"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5098581608"],"corresponding_institution_ids":["https://openalex.org/I133529467"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":12.2641,"has_fulltext":true,"cited_by_count":36,"citation_normalized_percentile":{"value":0.98894043,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"40","issue":"7","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11273","display_name":"Advanced Graph Neural Networks","score":0.9678999781608582,"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"}},"topics":[{"id":"https://openalex.org/T11273","display_name":"Advanced Graph Neural Networks","score":0.9678999781608582,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9588000178337097,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.9309999942779541,"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/repurposing","display_name":"Repurposing","score":0.853836715221405},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6376314759254456},{"id":"https://openalex.org/keywords/drug-repositioning","display_name":"Drug repositioning","score":0.6140871047973633},{"id":"https://openalex.org/keywords/transformer","display_name":"Transformer","score":0.5835067629814148},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.5631860494613647},{"id":"https://openalex.org/keywords/drug","display_name":"Drug","score":0.45852699875831604},{"id":"https://openalex.org/keywords/pharmacology","display_name":"Pharmacology","score":0.2109057903289795},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.19450914859771729},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.14869296550750732},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.13759809732437134},{"id":"https://openalex.org/keywords/electrical-engineering","display_name":"Electrical engineering","score":0.10997620224952698},{"id":"https://openalex.org/keywords/voltage","display_name":"Voltage","score":0.06494361162185669}],"concepts":[{"id":"https://openalex.org/C519536355","wikidata":"https://www.wikidata.org/wiki/Q21021151","display_name":"Repurposing","level":2,"score":0.853836715221405},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6376314759254456},{"id":"https://openalex.org/C103637391","wikidata":"https://www.wikidata.org/wiki/Q5308921","display_name":"Drug repositioning","level":3,"score":0.6140871047973633},{"id":"https://openalex.org/C66322947","wikidata":"https://www.wikidata.org/wiki/Q11658","display_name":"Transformer","level":3,"score":0.5835067629814148},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.5631860494613647},{"id":"https://openalex.org/C2780035454","wikidata":"https://www.wikidata.org/wiki/Q8386","display_name":"Drug","level":2,"score":0.45852699875831604},{"id":"https://openalex.org/C98274493","wikidata":"https://www.wikidata.org/wiki/Q128406","display_name":"Pharmacology","level":1,"score":0.2109057903289795},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.19450914859771729},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.14869296550750732},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.13759809732437134},{"id":"https://openalex.org/C119599485","wikidata":"https://www.wikidata.org/wiki/Q43035","display_name":"Electrical engineering","level":1,"score":0.10997620224952698},{"id":"https://openalex.org/C165801399","wikidata":"https://www.wikidata.org/wiki/Q25428","display_name":"Voltage","level":2,"score":0.06494361162185669},{"id":"https://openalex.org/C548081761","wikidata":"https://www.wikidata.org/wiki/Q180388","display_name":"Waste management","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":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058492","descriptor_name":"Drug Repositioning","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D058492","descriptor_name":"Drug Repositioning","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D058492","descriptor_name":"Drug Repositioning","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D058492","descriptor_name":"Drug Repositioning","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D058492","descriptor_name":"Drug Repositioning","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btae349","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae349","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae349/58319606/btae349.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:38913860","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38913860","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:pubmedcentral.nih.gov:11223801","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11223801","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11223801/pdf/btae349.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btae349","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae349","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae349/58319606/btae349.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3423493746","display_name":null,"funder_award_id":"96006077","funder_id":"https://openalex.org/F4320322243","funder_display_name":"Iran National Science Foundation"},{"id":"https://openalex.org/G4851489926","display_name":null,"funder_award_id":"99025741","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G6987110935","display_name":null,"funder_award_id":"(INSF","funder_id":"https://openalex.org/F4320322243","funder_display_name":"Iran National Science Foundation"},{"id":"https://openalex.org/G848032724","display_name":null,"funder_award_id":"Science","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G8632903592","display_name":null,"funder_award_id":"(INSF)","funder_id":"https://openalex.org/F4320322243","funder_display_name":"Iran National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320322243","display_name":"Iran National Science Foundation","ror":"https://ror.org/03sr1ma14"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4399940476.pdf"},"referenced_works_count":37,"referenced_works":["https://openalex.org/W182440400","https://openalex.org/W1529928539","https://openalex.org/W1975147762","https://openalex.org/W1995665983","https://openalex.org/W2018518196","https://openalex.org/W2039901564","https://openalex.org/W2103207001","https://openalex.org/W2112222750","https://openalex.org/W2124865561","https://openalex.org/W2125544564","https://openalex.org/W2148817141","https://openalex.org/W2185296181","https://openalex.org/W2279856163","https://openalex.org/W2295458664","https://openalex.org/W2735612922","https://openalex.org/W2766208765","https://openalex.org/W2795628887","https://openalex.org/W2896002881","https://openalex.org/W2911489562","https://openalex.org/W2945027804","https://openalex.org/W2946099214","https://openalex.org/W2949311246","https://openalex.org/W2995188607","https://openalex.org/W3038915487","https://openalex.org/W3039977092","https://openalex.org/W3043498388","https://openalex.org/W3082246640","https://openalex.org/W3087156149","https://openalex.org/W3093030756","https://openalex.org/W3093150592","https://openalex.org/W3119705197","https://openalex.org/W3183020242","https://openalex.org/W3204524408","https://openalex.org/W4211219865","https://openalex.org/W4318983406","https://openalex.org/W6607410464","https://openalex.org/W6686481269"],"related_works":["https://openalex.org/W2899096130","https://openalex.org/W3190782215","https://openalex.org/W2902729297","https://openalex.org/W3110500039","https://openalex.org/W4255531208","https://openalex.org/W4396858017","https://openalex.org/W4400165188","https://openalex.org/W4206422705","https://openalex.org/W4320009247","https://openalex.org/W3186872001"],"abstract_inverted_index":{"The":[0],"source":[1],"code":[2],"and":[3,9],"data":[4],"are":[5],"available":[6],"at":[7],"https://github.com/bcb-sut/HGTDR":[8],"http://git.dml.ir/BCB/HGTDR.":[10]},"counts_by_year":[{"year":2026,"cited_by_count":6},{"year":2025,"cited_by_count":17},{"year":2024,"cited_by_count":13}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
