{"id":"https://openalex.org/W4377968246","doi":"https://doi.org/10.1093/bib/bbad184","title":"DBGRU-SE: predicting drug\u2013drug interactions based on double BiGRU and squeeze-and-excitation attention mechanism","display_name":"DBGRU-SE: predicting drug\u2013drug interactions based on double BiGRU and squeeze-and-excitation attention mechanism","publication_year":2023,"publication_date":"2023-05-23","ids":{"openalex":"https://openalex.org/W4377968246","doi":"https://doi.org/10.1093/bib/bbad184","pmid":"https://pubmed.ncbi.nlm.nih.gov/37225428"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbad184","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad184","pdf_url":"https://academic.oup.com/bib/advance-article-pdf/doi/10.1093/bib/bbad184/50425083/bbad184.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in 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/bib/advance-article-pdf/doi/10.1093/bib/bbad184/50425083/bbad184.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5090374198","display_name":"Mingxiang Zhang","orcid":"https://orcid.org/0000-0003-3084-0775"},"institutions":[{"id":"https://openalex.org/I143413998","display_name":"Qingdao University of Science and Technology","ror":"https://ror.org/041j8js14","country_code":"CN","type":"education","lineage":["https://openalex.org/I143413998"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Mingxiang Zhang","raw_affiliation_strings":["Qingdao University of Science and Technology , China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Qingdao University of Science and Technology , China","institution_ids":["https://openalex.org/I143413998"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055401422","display_name":"Hongli Gao","orcid":"https://orcid.org/0000-0002-9288-4418"},"institutions":[{"id":"https://openalex.org/I143413998","display_name":"Qingdao University of Science and Technology","ror":"https://ror.org/041j8js14","country_code":"CN","type":"education","lineage":["https://openalex.org/I143413998"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hongli Gao","raw_affiliation_strings":["Qingdao University of Science and Technology , China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Qingdao University of Science and Technology , China","institution_ids":["https://openalex.org/I143413998"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068016508","display_name":"Xin Liao","orcid":"https://orcid.org/0000-0002-9640-8638"},"institutions":[{"id":"https://openalex.org/I143413998","display_name":"Qingdao University of Science and Technology","ror":"https://ror.org/041j8js14","country_code":"CN","type":"education","lineage":["https://openalex.org/I143413998"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xin Liao","raw_affiliation_strings":["Qingdao University of Science and Technology , China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Qingdao University of Science and Technology , China","institution_ids":["https://openalex.org/I143413998"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110979911","display_name":"Baoxing Ning","orcid":null},"institutions":[{"id":"https://openalex.org/I143413998","display_name":"Qingdao University of Science and Technology","ror":"https://ror.org/041j8js14","country_code":"CN","type":"education","lineage":["https://openalex.org/I143413998"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Baoxing Ning","raw_affiliation_strings":["Qingdao University of Science and Technology , China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Qingdao University of Science and Technology , China","institution_ids":["https://openalex.org/I143413998"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100872128","display_name":"Haiming Gu","orcid":null},"institutions":[{"id":"https://openalex.org/I143413998","display_name":"Qingdao University of Science and Technology","ror":"https://ror.org/041j8js14","country_code":"CN","type":"education","lineage":["https://openalex.org/I143413998"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Haiming Gu","raw_affiliation_strings":["Qingdao University of Science and Technology , China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Qingdao University of Science and Technology , China","institution_ids":["https://openalex.org/I143413998"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100646131","display_name":"Bin Yu","orcid":"https://orcid.org/0000-0002-2453-7852"},"institutions":[{"id":"https://openalex.org/I143413998","display_name":"Qingdao University of Science and Technology","ror":"https://ror.org/041j8js14","country_code":"CN","type":"education","lineage":["https://openalex.org/I143413998"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Bin Yu","raw_affiliation_strings":["Qingdao University of Science and Technology , China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Qingdao University of Science and Technology , China","institution_ids":["https://openalex.org/I143413998"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5100646131","https://openalex.org/A5100872128"],"corresponding_institution_ids":["https://openalex.org/I143413998"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":3.104,"has_fulltext":true,"cited_by_count":18,"citation_normalized_percentile":{"value":0.92912167,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":98,"max":99},"biblio":{"volume":"24","issue":"4","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":1.0,"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"}},"topics":[{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":1.0,"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"}},{"id":"https://openalex.org/T11948","display_name":"Machine Learning in Materials Science","score":0.9958000183105469,"subfield":{"id":"https://openalex.org/subfields/2505","display_name":"Materials Chemistry"},"field":{"id":"https://openalex.org/fields/25","display_name":"Materials Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.995199978351593,"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/drug","display_name":"Drug","score":0.7402833104133606},{"id":"https://openalex.org/keywords/mechanism","display_name":"Mechanism (biology)","score":0.6373323798179626},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4166111946105957},{"id":"https://openalex.org/keywords/pharmacology","display_name":"Pharmacology","score":0.24467059969902039},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.22817277908325195},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.10015353560447693}],"concepts":[{"id":"https://openalex.org/C2780035454","wikidata":"https://www.wikidata.org/wiki/Q8386","display_name":"Drug","level":2,"score":0.7402833104133606},{"id":"https://openalex.org/C89611455","wikidata":"https://www.wikidata.org/wiki/Q6804646","display_name":"Mechanism (biology)","level":2,"score":0.6373323798179626},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4166111946105957},{"id":"https://openalex.org/C98274493","wikidata":"https://www.wikidata.org/wiki/Q128406","display_name":"Pharmacology","level":1,"score":0.24467059969902039},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.22817277908325195},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.10015353560447693},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D004347","descriptor_name":"Drug Interactions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004347","descriptor_name":"Drug Interactions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004347","descriptor_name":"Drug Interactions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bbad184","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad184","pdf_url":"https://academic.oup.com/bib/advance-article-pdf/doi/10.1093/bib/bbad184/50425083/bbad184.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:37225428","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37225428","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":"Briefings in bioinformatics","raw_type":null}],"best_oa_location":{"id":"doi:10.1093/bib/bbad184","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad184","pdf_url":"https://academic.oup.com/bib/advance-article-pdf/doi/10.1093/bib/bbad184/50425083/bbad184.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Good health and well-being","score":0.7300000190734863,"id":"https://metadata.un.org/sdg/3"}],"awards":[{"id":"https://openalex.org/G1855874953","display_name":null,"funder_award_id":"ZR2021MF098","funder_id":"https://openalex.org/F4320324174","funder_display_name":"Natural Science Foundation of Shandong Province"},{"id":"https://openalex.org/G5049754085","display_name":null,"funder_award_id":"62172248","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5657669337","display_name":null,"funder_award_id":"ZR2021MF098","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"},{"id":"https://openalex.org/F4320324174","display_name":"Natural Science Foundation of Shandong Province","ror":null}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4377968246.pdf","grobid_xml":"https://content.openalex.org/works/W4377968246.grobid-xml"},"referenced_works_count":74,"referenced_works":["https://openalex.org/W85350352","https://openalex.org/W1018047830","https://openalex.org/W1500568346","https://openalex.org/W1576442155","https://openalex.org/W1996019203","https://openalex.org/W2002209097","https://openalex.org/W2018518196","https://openalex.org/W2046584449","https://openalex.org/W2056132907","https://openalex.org/W2057455558","https://openalex.org/W2058190282","https://openalex.org/W2081766084","https://openalex.org/W2091439417","https://openalex.org/W2119002393","https://openalex.org/W2135046866","https://openalex.org/W2136939460","https://openalex.org/W2138019504","https://openalex.org/W2148143831","https://openalex.org/W2157331557","https://openalex.org/W2170146596","https://openalex.org/W2554665268","https://openalex.org/W2570516417","https://openalex.org/W2786016794","https://openalex.org/W2798133167","https://openalex.org/W2802200505","https://openalex.org/W2885195348","https://openalex.org/W2901039866","https://openalex.org/W2904742480","https://openalex.org/W2907063321","https://openalex.org/W2963420686","https://openalex.org/W2980057552","https://openalex.org/W2987364150","https://openalex.org/W2995175648","https://openalex.org/W3000373012","https://openalex.org/W3013557219","https://openalex.org/W3022199973","https://openalex.org/W3048991675","https://openalex.org/W3088680691","https://openalex.org/W3105609465","https://openalex.org/W3109938628","https://openalex.org/W3110009138","https://openalex.org/W3116936501","https://openalex.org/W3124662554","https://openalex.org/W3126823466","https://openalex.org/W3157889929","https://openalex.org/W3160363665","https://openalex.org/W3191089618","https://openalex.org/W3193463107","https://openalex.org/W3203480730","https://openalex.org/W3203908308","https://openalex.org/W3205082786","https://openalex.org/W3209860579","https://openalex.org/W3210755349","https://openalex.org/W4206316880","https://openalex.org/W4211063068","https://openalex.org/W4220660070","https://openalex.org/W4220757799","https://openalex.org/W4221074700","https://openalex.org/W4224322651","https://openalex.org/W4224946912","https://openalex.org/W4307093167","https://openalex.org/W4310014465","https://openalex.org/W4316340029","https://openalex.org/W4316669746","https://openalex.org/W4318150241","https://openalex.org/W4385245566","https://openalex.org/W6603460400","https://openalex.org/W6626744847","https://openalex.org/W6634357899","https://openalex.org/W6680230698","https://openalex.org/W6683258052","https://openalex.org/W6739901393","https://openalex.org/W6750563020","https://openalex.org/W6756634077"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W4391913857","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W4396696052"],"abstract_inverted_index":{"The":[0,113,135],"prediction":[1],"of":[2,13,25,63,116],"drug-drug":[3,145],"interactions":[4],"(DDIs)":[5],"is":[6,69,77],"essential":[7],"for":[8,40,144],"the":[9,23,60,64,81,85,90,97,120,128],"development":[10],"and":[11,29,50,52,101,125,127,132],"repositioning":[12],"new":[14,36],"drugs.":[15,65],"Meanwhile,":[16],"they":[17],"play":[18],"a":[19,35],"vital":[20],"role":[21],"in":[22],"fields":[24],"biopharmaceuticals,":[26],"disease":[27],"diagnosis":[28],"pharmacological":[30],"treatment.":[31],"This":[32],"article":[33],"proposes":[34],"method":[37],"called":[38],"DBGRU-SE":[39,117,139],"predicting":[41],"DDIs.":[42,108],"Firstly,":[43],"FP3":[44],"fingerprints,":[45,47],"MACCS":[46],"Pubchem":[48],"fingerprints":[49],"1D":[51],"2D":[53],"molecular":[54],"descriptors":[55],"are":[56,94,123,130],"used":[57,70],"to":[58,71,79,83,106],"extract":[59],"feature":[61,87,92],"information":[62],"Secondly,":[66],"Group":[67],"Lasso":[68],"remove":[72],"redundant":[73],"features.":[74],"Then,":[75],"SMOTE-ENN":[76],"applied":[78],"balance":[80],"data":[82],"obtain":[84],"best":[86,91],"vectors.":[88],"Finally,":[89],"vectors":[93],"fed":[95],"into":[96],"classifier":[98],"combining":[99],"BiGRU":[100],"squeeze-and-excitation":[102],"(SE)":[103],"attention":[104],"mechanisms":[105],"predict":[107],"After":[109],"applying":[110],"five-fold":[111],"cross-validation,":[112],"ACC":[114],"values":[115],"model":[118],"on":[119],"two":[121],"datasets":[122],"97.51":[124],"94.98%,":[126],"AUC":[129],"99.60":[131],"98.85%,":[133],"respectively.":[134],"results":[136],"showed":[137],"that":[138],"had":[140],"good":[141],"predictive":[142],"performance":[143],"interactions.":[146]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":7},{"year":2024,"cited_by_count":8}],"updated_date":"2026-07-14T08:27:34.040176","created_date":"2025-10-10T00:00:00"}
