{"id":"https://openalex.org/W4406930717","doi":"https://doi.org/10.1021/acs.jcim.4c01893","title":"MutualDTA: An Interpretable Drug\u2013Target Affinity Prediction Model Leveraging Pretrained Models and Mutual Attention","display_name":"MutualDTA: An Interpretable Drug\u2013Target Affinity Prediction Model Leveraging Pretrained Models and Mutual Attention","publication_year":2025,"publication_date":"2025-01-29","ids":{"openalex":"https://openalex.org/W4406930717","doi":"https://doi.org/10.1021/acs.jcim.4c01893","pmid":"https://pubmed.ncbi.nlm.nih.gov/39878060"},"language":"en","primary_location":{"id":"doi:10.1021/acs.jcim.4c01893","is_oa":false,"landing_page_url":"https://doi.org/10.1021/acs.jcim.4c01893","pdf_url":null,"source":{"id":"https://openalex.org/S167262187","display_name":"Journal of Chemical Information and Modeling","issn_l":"1549-9596","issn":["1549-9596","1549-960X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Modeling","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","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/A5001371066","display_name":"Yongna Yuan","orcid":"https://orcid.org/0000-0003-1141-6098"},"institutions":[{"id":"https://openalex.org/I76214153","display_name":"Lanzhou University","ror":"https://ror.org/01mkqqe32","country_code":"CN","type":"education","lineage":["https://openalex.org/I76214153"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Yongna Yuan","raw_affiliation_strings":["Lanzhou University","School of Information Science & Engineering","School of Information Science & Engineering, Lanzhou University, Lanzhou 730000, China"],"affiliations":[{"raw_affiliation_string":"Lanzhou University","institution_ids":["https://openalex.org/I76214153"]},{"raw_affiliation_string":"School of Information Science & Engineering","institution_ids":[]},{"raw_affiliation_string":"School of Information Science & Engineering, Lanzhou University, Lanzhou 730000, China","institution_ids":["https://openalex.org/I76214153"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5109616081","display_name":"Siming Chen","orcid":"https://orcid.org/0000-0002-2690-3588"},"institutions":[{"id":"https://openalex.org/I76214153","display_name":"Lanzhou University","ror":"https://ror.org/01mkqqe32","country_code":"CN","type":"education","lineage":["https://openalex.org/I76214153"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Siming Chen","raw_affiliation_strings":["Lanzhou University","School of Information Science & Engineering","School of Information Science & Engineering, Lanzhou University, Lanzhou 730000, China"],"affiliations":[{"raw_affiliation_string":"Lanzhou University","institution_ids":["https://openalex.org/I76214153"]},{"raw_affiliation_string":"School of Information Science & Engineering","institution_ids":[]},{"raw_affiliation_string":"School of Information Science & Engineering, Lanzhou University, Lanzhou 730000, China","institution_ids":["https://openalex.org/I76214153"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5043064566","display_name":"Rizhen Hu","orcid":"https://orcid.org/0009-0000-3812-1252"},"institutions":[{"id":"https://openalex.org/I76214153","display_name":"Lanzhou University","ror":"https://ror.org/01mkqqe32","country_code":"CN","type":"education","lineage":["https://openalex.org/I76214153"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Rizhen Hu","raw_affiliation_strings":["Lanzhou University","School of Information Science & Engineering","School of Information Science & Engineering, Lanzhou University, Lanzhou 730000, China"],"affiliations":[{"raw_affiliation_string":"Lanzhou University","institution_ids":["https://openalex.org/I76214153"]},{"raw_affiliation_string":"School of Information Science & Engineering","institution_ids":[]},{"raw_affiliation_string":"School of Information Science & Engineering, Lanzhou University, Lanzhou 730000, China","institution_ids":["https://openalex.org/I76214153"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100327868","display_name":"Xin Wang","orcid":"https://orcid.org/0000-0001-9651-0651"},"institutions":[{"id":"https://openalex.org/I76214153","display_name":"Lanzhou University","ror":"https://ror.org/01mkqqe32","country_code":"CN","type":"education","lineage":["https://openalex.org/I76214153"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xin Wang","raw_affiliation_strings":["Lanzhou University","School of Information Science & Engineering","School of Information Science & Engineering, Lanzhou University, Lanzhou 730000, China"],"affiliations":[{"raw_affiliation_string":"Lanzhou University","institution_ids":["https://openalex.org/I76214153"]},{"raw_affiliation_string":"School of Information Science & Engineering","institution_ids":[]},{"raw_affiliation_string":"School of Information Science & Engineering, Lanzhou University, Lanzhou 730000, China","institution_ids":["https://openalex.org/I76214153"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5001371066"],"corresponding_institution_ids":["https://openalex.org/I76214153"],"apc_list":null,"apc_paid":null,"fwci":4.1687,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":{"value":0.93076609,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":95,"max":98},"biblio":{"volume":"65","issue":"3","first_page":"1211","last_page":"1227"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9998999834060669,"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":0.9998999834060669,"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":0.9948999881744385,"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/T10836","display_name":"Metabolomics and Mass Spectrometry Studies","score":0.9876000285148621,"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-target","display_name":"Drug target","score":0.6090095043182373},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5775176882743835},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5528808832168579},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.4885011911392212},{"id":"https://openalex.org/keywords/drug-discovery","display_name":"Drug discovery","score":0.48811015486717224},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.12115073204040527},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.11625620722770691},{"id":"https://openalex.org/keywords/pharmacology","display_name":"Pharmacology","score":0.10401439666748047}],"concepts":[{"id":"https://openalex.org/C2989108626","wikidata":"https://www.wikidata.org/wiki/Q904407","display_name":"Drug target","level":2,"score":0.6090095043182373},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5775176882743835},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5528808832168579},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.4885011911392212},{"id":"https://openalex.org/C74187038","wikidata":"https://www.wikidata.org/wiki/Q1418791","display_name":"Drug discovery","level":2,"score":0.48811015486717224},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.12115073204040527},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.11625620722770691},{"id":"https://openalex.org/C98274493","wikidata":"https://www.wikidata.org/wiki/Q128406","display_name":"Pharmacology","level":1,"score":0.10401439666748047}],"mesh":[{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004364","descriptor_name":"Pharmaceutical Preparations","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004364","descriptor_name":"Pharmaceutical Preparations","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004364","descriptor_name":"Pharmaceutical Preparations","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004364","descriptor_name":"Pharmaceutical Preparations","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D004364","descriptor_name":"Pharmaceutical Preparations","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D004364","descriptor_name":"Pharmaceutical Preparations","qualifier_ui":"Q000737","qualifier_name":"chemistry","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":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","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":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1021/acs.jcim.4c01893","is_oa":false,"landing_page_url":"https://doi.org/10.1021/acs.jcim.4c01893","pdf_url":null,"source":{"id":"https://openalex.org/S167262187","display_name":"Journal of Chemical Information and Modeling","issn_l":"1549-9596","issn":["1549-9596","1549-960X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Modeling","raw_type":"journal-article"},{"id":"pmid:39878060","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39878060","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":"Journal of chemical information and modeling","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1758435250","display_name":null,"funder_award_id":"21YF5GA102","funder_id":"https://openalex.org/F4320336616","funder_display_name":"Science and Technology Program of Gansu Province"},{"id":"https://openalex.org/G1827678497","display_name":null,"funder_award_id":"21YF5GA006","funder_id":"https://openalex.org/F4320336616","funder_display_name":"Science and Technology Program of Gansu Province"},{"id":"https://openalex.org/G18435122","display_name":null,"funder_award_id":"2023332","funder_id":"https://openalex.org/F4320324678","funder_display_name":"Lanzhou Science and Technology Bureau"},{"id":"https://openalex.org/G1910370981","display_name":null,"funder_award_id":"22373043","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G4852048384","display_name":null,"funder_award_id":"22ZD6GA029","funder_id":"https://openalex.org/F4320336616","funder_display_name":"Science and Technology Program of Gansu Province"},{"id":"https://openalex.org/G92118901","display_name":null,"funder_award_id":"21ZD8RA008","funder_id":"https://openalex.org/F4320336616","funder_display_name":"Science and Technology Program of Gansu Province"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320324678","display_name":"Lanzhou Science and Technology Bureau","ror":"https://ror.org/030q46522"},{"id":"https://openalex.org/F4320336616","display_name":"Science and Technology Program of Gansu Province","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":66,"referenced_works":["https://openalex.org/W1500036797","https://openalex.org/W1567411871","https://openalex.org/W1972987731","https://openalex.org/W1979414133","https://openalex.org/W1985270532","https://openalex.org/W2003109394","https://openalex.org/W2017254234","https://openalex.org/W2023170820","https://openalex.org/W2023782921","https://openalex.org/W2027702484","https://openalex.org/W2038141966","https://openalex.org/W2053658804","https://openalex.org/W2055147198","https://openalex.org/W2062941476","https://openalex.org/W2071068165","https://openalex.org/W2074370114","https://openalex.org/W2085869342","https://openalex.org/W2086286404","https://openalex.org/W2109991441","https://openalex.org/W2117620409","https://openalex.org/W2145962544","https://openalex.org/W2470673105","https://openalex.org/W2558217333","https://openalex.org/W2558283162","https://openalex.org/W2605952223","https://openalex.org/W2607497028","https://openalex.org/W2770663710","https://openalex.org/W2785947426","https://openalex.org/W2793951981","https://openalex.org/W2810408942","https://openalex.org/W2899018989","https://openalex.org/W2899788782","https://openalex.org/W2923922207","https://openalex.org/W2985881898","https://openalex.org/W3000043291","https://openalex.org/W3017341961","https://openalex.org/W3021453944","https://openalex.org/W3023204497","https://openalex.org/W3028589594","https://openalex.org/W3096561213","https://openalex.org/W3116202926","https://openalex.org/W3117081956","https://openalex.org/W3123744360","https://openalex.org/W3127104022","https://openalex.org/W3130218089","https://openalex.org/W3138412820","https://openalex.org/W3152586663","https://openalex.org/W3159276577","https://openalex.org/W3177500196","https://openalex.org/W3206585172","https://openalex.org/W3210755349","https://openalex.org/W3215525389","https://openalex.org/W4200139236","https://openalex.org/W4200547951","https://openalex.org/W4205167309","https://openalex.org/W4285165731","https://openalex.org/W4294875307","https://openalex.org/W4297179162","https://openalex.org/W4309452766","https://openalex.org/W4322745247","https://openalex.org/W4323304388","https://openalex.org/W4327550249","https://openalex.org/W4385790266","https://openalex.org/W4388006581","https://openalex.org/W4396888978","https://openalex.org/W4400142953"],"related_works":["https://openalex.org/W2961085424","https://openalex.org/W4306674287","https://openalex.org/W4387369504","https://openalex.org/W3046775127","https://openalex.org/W4394896187","https://openalex.org/W3170094116","https://openalex.org/W4386462264","https://openalex.org/W3107602296","https://openalex.org/W4364306694","https://openalex.org/W4312192474"],"abstract_inverted_index":{"Efficient":[0],"and":[1,25,52,92,123,134,139,220],"accurate":[2,88],"drug-target":[3,60],"affinity":[4],"(DTA)":[5],"prediction":[6,24],"can":[7,179],"significantly":[8],"accelerate":[9],"the":[10,39,46,64,81,107,114,126,145,164,169,191,200,205,221,228,235],"drug":[11,132,188,213,230,240],"development":[12],"process.":[13],"Recently,":[14],"deep":[15,71],"learning":[16,72],"models":[17,85],"have":[18,26],"been":[19],"widely":[20],"applied":[21,209],"to":[22,86,99,143,168,210],"DTA":[23],"achieved":[27],"notable":[28],"success.":[29],"However,":[30],"existing":[31],"methods":[32,55],"often":[33],"encounter":[34],"several":[35],"common":[36],"issues:":[37],"first,":[38],"data":[40,158],"representations":[41,89],"lack":[42,56],"sufficient":[43],"information;":[44],"second,":[45],"extracted":[47],"features":[48,102],"are":[49,224],"not":[50,185],"comprehensive;":[51],"third,":[53],"most":[54],"interpretability":[57,108,201],"when":[58],"modeling":[59],"binding.":[61],"To":[62],"overcome":[63],"above-mentioned":[65],"problems,":[66],"we":[67],"propose":[68],"an":[69],"interpretable":[70],"model":[73],"called":[74],"MutualDTA":[75,79,110,142,162,178,207,238],"for":[76,194],"predicting":[77],"DTA.":[78],"leverages":[80],"power":[82],"of":[83,90,109,128,202,237],"pretrained":[84],"obtain":[87],"drugs":[91,122,223],"targets.":[93],"It":[94],"also":[95,198],"employs":[96],"well-designed":[97],"modules":[98],"extract":[100],"hidden":[101],"from":[103,125],"these":[104],"representations.":[105],"Furthermore,":[106],"is":[111,208],"realized":[112],"by":[113],"Mutual-Attention":[115],"module,":[116],"which":[117,184],"(i)":[118],"establishes":[119],"relationships":[120],"between":[121,131],"proteins":[124],"perspective":[127],"intermolecular":[129],"interactions":[130],"atoms":[133],"protein":[135],"amino":[136],"acid":[137],"residues":[138],"(ii)":[140],"allows":[141],"capture":[144,180],"binding":[146,195],"sites":[147],"based":[148],"on":[149,155],"attention":[150],"scores.":[151],"The":[152],"test":[153],"results":[154,233],"two":[156],"benchmark":[157],"sets":[159],"show":[160,176],"that":[161,177],"achieves":[163],"best":[165],"performance":[166],"compared":[167],"12":[170],"state-of-the-art":[171],"models.":[172],"Attention":[173],"visualization":[174],"experiments":[175],"partial":[181],"interaction":[182],"sites,":[183,196],"only":[186],"helps":[187],"developers":[189],"reduce":[190],"search":[192],"space":[193],"but":[197],"demonstrates":[199],"MutualDTA.":[203],"Finally,":[204],"trained":[206],"screen":[211],"high-affinity":[212],"screens":[214],"targeting":[215],"Alzheimer's":[216],"disease":[217],"(AD)-related":[218],"proteins,":[219],"screened":[222],"partially":[225],"present":[226],"in":[227,239],"anti-AD":[229],"library.":[231],"These":[232],"demonstrate":[234],"reliability":[236],"development.":[241]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2}],"updated_date":"2026-04-14T08:04:32.555800","created_date":"2025-10-10T00:00:00"}
