{"id":"https://openalex.org/W3213715512","doi":"https://doi.org/10.1093/bib/bbac209","title":"STNN-DDI: a Substructure-aware Tensor Neural Network to predict Drug\u2013Drug Interactions","display_name":"STNN-DDI: a Substructure-aware Tensor Neural Network to predict Drug\u2013Drug Interactions","publication_year":2022,"publication_date":"2022-05-06","ids":{"openalex":"https://openalex.org/W3213715512","doi":"https://doi.org/10.1093/bib/bbac209","mag":"3213715512","pmid":"https://pubmed.ncbi.nlm.nih.gov/35667078"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbac209","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbac209","pdf_url":null,"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":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5014009982","display_name":"Hui Yu","orcid":"https://orcid.org/0000-0002-5314-8127"},"institutions":[{"id":"https://openalex.org/I17145004","display_name":"Northwestern Polytechnical University","ror":"https://ror.org/01y0j0j86","country_code":"CN","type":"education","lineage":["https://openalex.org/I17145004"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Hui Yu","raw_affiliation_strings":["School of Computer Science, Northwestern Polytechnical University , Xi\u2019an 710072, China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science, Northwestern Polytechnical University , Xi\u2019an 710072, China","institution_ids":["https://openalex.org/I17145004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052346042","display_name":"Shiyu Zhao","orcid":"https://orcid.org/0000-0003-3098-8059"},"institutions":[{"id":"https://openalex.org/I17145004","display_name":"Northwestern Polytechnical University","ror":"https://ror.org/01y0j0j86","country_code":"CN","type":"education","lineage":["https://openalex.org/I17145004"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"ShiYu Zhao","raw_affiliation_strings":["School of Computer Science, Northwestern Polytechnical University , Xi\u2019an 710072, China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science, Northwestern Polytechnical University , Xi\u2019an 710072, China","institution_ids":["https://openalex.org/I17145004"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5000609872","display_name":"Jian\u2010Yu Shi","orcid":"https://orcid.org/0000-0002-2303-273X"},"institutions":[{"id":"https://openalex.org/I17145004","display_name":"Northwestern Polytechnical University","ror":"https://ror.org/01y0j0j86","country_code":"CN","type":"education","lineage":["https://openalex.org/I17145004"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"JianYu Shi","raw_affiliation_strings":["School of Life Sciences, Northwestern Polytechnical University , Xi\u2019an 710072, China"],"affiliations":[{"raw_affiliation_string":"School of Life Sciences, Northwestern Polytechnical University , Xi\u2019an 710072, China","institution_ids":["https://openalex.org/I17145004"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5014009982"],"corresponding_institution_ids":["https://openalex.org/I17145004"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":5.7561,"has_fulltext":false,"cited_by_count":46,"citation_normalized_percentile":{"value":0.97724551,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"23","issue":"4","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12303","display_name":"Tensor decomposition and applications","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/2605","display_name":"Computational Mathematics"},"field":{"id":"https://openalex.org/fields/26","display_name":"Mathematics"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T12303","display_name":"Tensor decomposition and applications","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/2605","display_name":"Computational Mathematics"},"field":{"id":"https://openalex.org/fields/26","display_name":"Mathematics"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9887999892234802,"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":0.963100016117096,"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/substructure","display_name":"Substructure","score":0.9520716667175293},{"id":"https://openalex.org/keywords/interpretability","display_name":"Interpretability","score":0.9495017528533936},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6452231407165527},{"id":"https://openalex.org/keywords/tensor","display_name":"Tensor (intrinsic definition)","score":0.5582098364830017},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5207440853118896},{"id":"https://openalex.org/keywords/artificial-neural-network","display_name":"Artificial neural network","score":0.4586278796195984},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.39323437213897705},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.3267309069633484},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.18726211786270142},{"id":"https://openalex.org/keywords/pure-mathematics","display_name":"Pure mathematics","score":0.07022851705551147}],"concepts":[{"id":"https://openalex.org/C99679407","wikidata":"https://www.wikidata.org/wiki/Q56761637","display_name":"Substructure","level":2,"score":0.9520716667175293},{"id":"https://openalex.org/C2781067378","wikidata":"https://www.wikidata.org/wiki/Q17027399","display_name":"Interpretability","level":2,"score":0.9495017528533936},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6452231407165527},{"id":"https://openalex.org/C155281189","wikidata":"https://www.wikidata.org/wiki/Q3518150","display_name":"Tensor (intrinsic definition)","level":2,"score":0.5582098364830017},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5207440853118896},{"id":"https://openalex.org/C50644808","wikidata":"https://www.wikidata.org/wiki/Q192776","display_name":"Artificial neural network","level":2,"score":0.4586278796195984},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.39323437213897705},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.3267309069633484},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.18726211786270142},{"id":"https://openalex.org/C202444582","wikidata":"https://www.wikidata.org/wiki/Q837863","display_name":"Pure mathematics","level":1,"score":0.07022851705551147},{"id":"https://openalex.org/C66938386","wikidata":"https://www.wikidata.org/wiki/Q633538","display_name":"Structural engineering","level":1,"score":0.0},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D003625","descriptor_name":"Data Collection","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003625","descriptor_name":"Data Collection","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003625","descriptor_name":"Data Collection","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004347","descriptor_name":"Drug Interactions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004347","descriptor_name":"Drug Interactions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004347","descriptor_name":"Drug Interactions","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":"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":"D064420","descriptor_name":"Drug-Related Side Effects and Adverse Reactions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064420","descriptor_name":"Drug-Related Side Effects and Adverse Reactions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064420","descriptor_name":"Drug-Related Side Effects and Adverse Reactions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bbac209","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbac209","pdf_url":null,"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:35667078","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35667078","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":null,"sustainable_development_goals":[{"display_name":"Good health and well-being","score":0.6200000047683716,"id":"https://metadata.un.org/sdg/3"}],"awards":[{"id":"https://openalex.org/G6318023395","display_name":null,"funder_award_id":"61872297","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":false,"pdf":false},"content_urls":null,"referenced_works_count":39,"referenced_works":["https://openalex.org/W205829674","https://openalex.org/W1018047830","https://openalex.org/W1924938698","https://openalex.org/W1971387816","https://openalex.org/W1976801265","https://openalex.org/W1979845492","https://openalex.org/W2024165284","https://openalex.org/W2049588365","https://openalex.org/W2107516065","https://openalex.org/W2109482131","https://openalex.org/W2111489845","https://openalex.org/W2119002393","https://openalex.org/W2133347849","https://openalex.org/W2258054274","https://openalex.org/W2469230926","https://openalex.org/W2570516417","https://openalex.org/W2591704587","https://openalex.org/W2605325415","https://openalex.org/W2608081584","https://openalex.org/W2773126525","https://openalex.org/W2776684214","https://openalex.org/W2798133167","https://openalex.org/W2802200505","https://openalex.org/W2946438679","https://openalex.org/W2964465226","https://openalex.org/W2965993245","https://openalex.org/W2997021962","https://openalex.org/W3009356789","https://openalex.org/W3013557219","https://openalex.org/W3022124687","https://openalex.org/W3024894285","https://openalex.org/W3042983321","https://openalex.org/W3102269903","https://openalex.org/W3108458441","https://openalex.org/W3154861395","https://openalex.org/W4238584409","https://openalex.org/W6636705969","https://openalex.org/W6733741073","https://openalex.org/W6746012787"],"related_works":["https://openalex.org/W2905433371","https://openalex.org/W4390569940","https://openalex.org/W4361193272","https://openalex.org/W4310278675","https://openalex.org/W4388422664","https://openalex.org/W2806259446","https://openalex.org/W2963326959","https://openalex.org/W4247136043","https://openalex.org/W4312407344","https://openalex.org/W4384115502"],"abstract_inverted_index":{"Computational":[0],"prediction":[1,83,135],"of":[2,29,92,113,122,160,166,192],"multiple-type":[3,133],"drug-drug":[4],"interaction":[5,97,106,196,219],"(DDI)":[6],"helps":[7],"reduce":[8],"unexpected":[9],"side":[10],"effects":[11],"in":[12,136,142,200],"poly-drug":[13],"treatments.":[14],"Although":[15],"existing":[16],"computational":[17],"approaches":[18],"achieve":[19],"inspiring":[20],"results,":[21],"they":[22],"ignore":[23],"to":[24,110,130,211],"study":[25],"which":[26,102],"local":[27,55],"structures":[28,57],"drugs":[30,50,123,187],"cause":[31],"DDIs,":[32],"and":[33,59,139,170,194],"their":[34,54,60],"interpretability":[35,178],"is":[36,225],"still":[37],"weak.":[38],"In":[39,204],"this":[40,125],"paper,":[41],"by":[42,53,65,179],"supposing":[43],"that":[44],"the":[45,66,120,132,158,163,218],"interactions":[46],"between":[47,68],"two":[48],"given":[49,202],"are":[51,63],"caused":[52],"chemical":[56,118],"(substructures)":[58],"DDI":[61,82,134,190],"types":[62],"determined":[64],"linkages":[67],"different":[69],"substructure":[70,184,198],"sets,":[71],"we":[72],"design":[73],"a":[74,89,104,111,143,189,201],"novel":[75],"Substructure-aware":[76],"Tensor":[77],"Neural":[78],"Network":[79],"model":[80,87],"for":[81],"(STNN-DDI).":[84],"The":[85,150],"proposed":[86],"learns":[88],"3-D":[90],"tensor":[91],"$\\langle":[93],"$":[94,100],"substructure,":[95,96],"type":[98,191],"$\\rangle":[99],"triplets,":[101],"characterizes":[103],"substructure-substructure":[105],"(SSI)":[107],"space.":[108],"According":[109],"list":[112],"predefined":[114],"substructures":[115],"with":[116,146,152,162],"specific":[117],"meanings,":[119],"mapping":[121],"into":[124],"SSI":[126],"space":[127],"enables":[128],"STNN-DDI":[129,161,206],"perform":[131],"both":[137,180],"transductive":[138],"inductive":[140],"scenarios":[141],"unified":[144],"form":[145],"an":[147,182,208],"explicable":[148],"manner.":[149],"comparison":[151],"deep":[153],"learning-based":[154],"state-of-the-art":[155],"baselines":[156],"demonstrates":[157],"superiority":[159],"significant":[164],"improvement":[165],"AUC,":[167],"AUPR,":[168],"Accuracy":[169],"Precision.":[171],"More":[172],"importantly,":[173],"case":[174],"studies":[175],"illustrate":[176],"its":[177],"revealing":[181],"important":[183],"pair":[185],"across":[186],"regarding":[188],"interest":[193],"uncovering":[195],"type-specific":[197],"pairs":[199],"DDI.":[203],"summary,":[205],"provides":[207],"effective":[209],"approach":[210],"predicting":[212],"DDIs":[213],"as":[214,216],"well":[215],"explaining":[217],"mechanisms":[220],"among":[221],"drugs.":[222],"Source":[223],"code":[224],"freely":[226],"available":[227],"at":[228],"https://github.com/zsy-9/STNN-DDI.":[229]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":16},{"year":2024,"cited_by_count":10},{"year":2023,"cited_by_count":14},{"year":2022,"cited_by_count":2}],"updated_date":"2026-03-13T16:22:10.518609","created_date":"2025-10-10T00:00:00"}
