{"id":"https://openalex.org/W4413344468","doi":"https://doi.org/10.1093/bioinformatics/btaf429","title":"Spatio-temporal learning from molecular dynamics simulations for protein\u2013ligand binding affinity prediction","display_name":"Spatio-temporal learning from molecular dynamics simulations for protein\u2013ligand binding affinity prediction","publication_year":2025,"publication_date":"2025-08-01","ids":{"openalex":"https://openalex.org/W4413344468","doi":"https://doi.org/10.1093/bioinformatics/btaf429","pmid":"https://pubmed.ncbi.nlm.nih.gov/40828893"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btaf429","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf429","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btaf429/64084893/btaf429.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/btaf429/64084893/btaf429.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5093229802","display_name":"Pierre-Yves Libouban","orcid":"https://orcid.org/0009-0006-8363-5897"},"institutions":[{"id":"https://openalex.org/I4210141565","display_name":"Institut de Chimie Organique et Analytique","ror":"https://ror.org/03ywn7d79","country_code":"FR","type":"facility","lineage":["https://openalex.org/I12449238","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I2738703131","https://openalex.org/I4210128300","https://openalex.org/I4210141565"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Pierre-Yves Libouban","raw_affiliation_strings":["Institute of Organic and Analytical Chemistry (ICOA), UMR7311, Universit\u00e9 d\u2019Orl\u00e9ans, CNRS, P\u00f4le de chimie rue de Chartres , 45067 Orl\u00e9ans Cedex 2,","ICOA - Institut de Chimie Organique et Analytique (UFR Sciences Rue de Chartres - BP 6759 45067 ORLEANS CEDEX 2 - France)","UMR7311, Universit\u00e9 d\u2019Orl\u00e9ans, CNRS Institute of Organic and Analytical Chemistry (ICOA), ,"],"affiliations":[{"raw_affiliation_string":"Institute of Organic and Analytical Chemistry (ICOA), UMR7311, Universit\u00e9 d\u2019Orl\u00e9ans, CNRS, P\u00f4le de chimie rue de Chartres , 45067 Orl\u00e9ans Cedex 2,","institution_ids":["https://openalex.org/I4210141565"]},{"raw_affiliation_string":"ICOA - Institut de Chimie Organique et Analytique (UFR Sciences Rue de Chartres - BP 6759 45067 ORLEANS CEDEX 2 - France)","institution_ids":["https://openalex.org/I4210141565"]},{"raw_affiliation_string":"UMR7311, Universit\u00e9 d\u2019Orl\u00e9ans, CNRS Institute of Organic and Analytical Chemistry (ICOA), ,","institution_ids":["https://openalex.org/I4210141565"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5104747162","display_name":"Camille Parisel","orcid":null},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210093434","display_name":"Institute for Research and Development","ror":"https://ror.org/00691gs61","country_code":"LK","type":"government","lineage":["https://openalex.org/I4210093434"]},{"id":"https://openalex.org/I4210113364","display_name":"John von Neumann Institute for Computing","ror":"https://ror.org/02zmk8084","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I1305996414","https://openalex.org/I1305996414","https://openalex.org/I169556180","https://openalex.org/I171892758","https://openalex.org/I2801876189","https://openalex.org/I4210113364"]}],"countries":["DE","FR","LK"],"is_corresponding":false,"raw_author_name":"Camille Parisel","raw_affiliation_strings":["Institute for Development and Resources in Intensive Scientific Computing (IDRIS), CNRS, Rue John Von Neumann , 91403 Orsay Cedex,","CNRS Institute for Development and Resources in Intensive Scientific Computing (IDRIS), ,","Institute for Development and Resources in Intensive Scientific Computing (IDRIS), CNRS, France"],"affiliations":[{"raw_affiliation_string":"Institute for Development and Resources in Intensive Scientific Computing (IDRIS), CNRS, Rue John Von Neumann , 91403 Orsay Cedex,","institution_ids":["https://openalex.org/I4210113364"]},{"raw_affiliation_string":"CNRS Institute for Development and Resources in Intensive Scientific Computing (IDRIS), ,","institution_ids":["https://openalex.org/I4210093434"]},{"raw_affiliation_string":"Institute for Development and Resources in Intensive Scientific Computing (IDRIS), CNRS, France","institution_ids":["https://openalex.org/I4210093434","https://openalex.org/I1294671590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000062861","display_name":"Myung Kyu Song","orcid":"https://orcid.org/0000-0002-9041-9758"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210093434","display_name":"Institute for Research and Development","ror":"https://ror.org/00691gs61","country_code":"LK","type":"government","lineage":["https://openalex.org/I4210093434"]},{"id":"https://openalex.org/I4210113364","display_name":"John von Neumann Institute for Computing","ror":"https://ror.org/02zmk8084","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I1305996414","https://openalex.org/I1305996414","https://openalex.org/I169556180","https://openalex.org/I171892758","https://openalex.org/I2801876189","https://openalex.org/I4210113364"]}],"countries":["DE","FR","LK"],"is_corresponding":false,"raw_author_name":"Maxime Song","raw_affiliation_strings":["Institute for Development and Resources in Intensive Scientific Computing (IDRIS), CNRS, Rue John Von Neumann , 91403 Orsay Cedex,","CNRS Institute for Development and Resources in Intensive Scientific Computing (IDRIS), ,","Institute for Development and Resources in Intensive Scientific Computing (IDRIS), CNRS, France"],"affiliations":[{"raw_affiliation_string":"Institute for Development and Resources in Intensive Scientific Computing (IDRIS), CNRS, Rue John Von Neumann , 91403 Orsay Cedex,","institution_ids":["https://openalex.org/I4210113364"]},{"raw_affiliation_string":"CNRS Institute for Development and Resources in Intensive Scientific Computing (IDRIS), ,","institution_ids":["https://openalex.org/I4210093434"]},{"raw_affiliation_string":"Institute for Development and Resources in Intensive Scientific Computing (IDRIS), CNRS, France","institution_ids":["https://openalex.org/I4210093434","https://openalex.org/I1294671590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090027634","display_name":"Samia Aci\u2010S\u00e8che","orcid":"https://orcid.org/0000-0003-2627-7924"},"institutions":[{"id":"https://openalex.org/I4210141565","display_name":"Institut de Chimie Organique et Analytique","ror":"https://ror.org/03ywn7d79","country_code":"FR","type":"facility","lineage":["https://openalex.org/I12449238","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I2738703131","https://openalex.org/I4210128300","https://openalex.org/I4210141565"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Samia Aci-S\u00e8che","raw_affiliation_strings":["Institute of Organic and Analytical Chemistry (ICOA), UMR7311, Universit\u00e9 d\u2019Orl\u00e9ans, CNRS, P\u00f4le de chimie rue de Chartres , 45067 Orl\u00e9ans Cedex 2,","ICOA - Institut de Chimie Organique et Analytique (UFR Sciences Rue de Chartres - BP 6759 45067 ORLEANS CEDEX 2 - France)","UMR7311, Universit\u00e9 d\u2019Orl\u00e9ans, CNRS Institute of Organic and Analytical Chemistry (ICOA), ,"],"affiliations":[{"raw_affiliation_string":"Institute of Organic and Analytical Chemistry (ICOA), UMR7311, Universit\u00e9 d\u2019Orl\u00e9ans, CNRS, P\u00f4le de chimie rue de Chartres , 45067 Orl\u00e9ans Cedex 2,","institution_ids":["https://openalex.org/I4210141565"]},{"raw_affiliation_string":"ICOA - Institut de Chimie Organique et Analytique (UFR Sciences Rue de Chartres - BP 6759 45067 ORLEANS CEDEX 2 - France)","institution_ids":["https://openalex.org/I4210141565"]},{"raw_affiliation_string":"UMR7311, Universit\u00e9 d\u2019Orl\u00e9ans, CNRS Institute of Organic and Analytical Chemistry (ICOA), ,","institution_ids":["https://openalex.org/I4210141565"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072476426","display_name":"Jos\u00e9 Carlos G\u00f3mez-Tamayo","orcid":"https://orcid.org/0000-0003-4709-6030"},"institutions":[{"id":"https://openalex.org/I137982388","display_name":"Janssen (Belgium)","ror":"https://ror.org/04yzcpd71","country_code":"BE","type":"company","lineage":["https://openalex.org/I1330063522","https://openalex.org/I137982388"]}],"countries":["BE"],"is_corresponding":false,"raw_author_name":"Jose C G\u00f3mez-Tamayo","raw_affiliation_strings":["Computational Chemistry, Janssen Research & Development, Janssen Pharmaceutica N. V , B-2340 Beerse,","Janssen Pharmaceutica N. V Computational Chemistry, Janssen Research & Development, , Beerse, B-2340,"],"affiliations":[{"raw_affiliation_string":"Computational Chemistry, Janssen Research & Development, Janssen Pharmaceutica N. V , B-2340 Beerse,","institution_ids":["https://openalex.org/I137982388"]},{"raw_affiliation_string":"Janssen Pharmaceutica N. V Computational Chemistry, Janssen Research & Development, , Beerse, B-2340,","institution_ids":["https://openalex.org/I137982388"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022201149","display_name":"Gary Tresadern","orcid":"https://orcid.org/0000-0002-4801-1644"},"institutions":[{"id":"https://openalex.org/I137982388","display_name":"Janssen (Belgium)","ror":"https://ror.org/04yzcpd71","country_code":"BE","type":"company","lineage":["https://openalex.org/I1330063522","https://openalex.org/I137982388"]}],"countries":["BE"],"is_corresponding":false,"raw_author_name":"Gary Tresadern","raw_affiliation_strings":["Computational Chemistry, Janssen Research & Development, Janssen Pharmaceutica N. V , B-2340 Beerse,","Janssen Pharmaceutica N. V Computational Chemistry, Janssen Research & Development, , Beerse, B-2340,"],"affiliations":[{"raw_affiliation_string":"Computational Chemistry, Janssen Research & Development, Janssen Pharmaceutica N. V , B-2340 Beerse,","institution_ids":["https://openalex.org/I137982388"]},{"raw_affiliation_string":"Janssen Pharmaceutica N. V Computational Chemistry, Janssen Research & Development, , Beerse, B-2340,","institution_ids":["https://openalex.org/I137982388"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5027241504","display_name":"Pascal Bonnet","orcid":"https://orcid.org/0000-0001-6485-138X"},"institutions":[{"id":"https://openalex.org/I4210141565","display_name":"Institut de Chimie Organique et Analytique","ror":"https://ror.org/03ywn7d79","country_code":"FR","type":"facility","lineage":["https://openalex.org/I12449238","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I2738703131","https://openalex.org/I4210128300","https://openalex.org/I4210141565"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Pascal Bonnet","raw_affiliation_strings":["Institute of Organic and Analytical Chemistry (ICOA), UMR7311, Universit\u00e9 d\u2019Orl\u00e9ans, CNRS, P\u00f4le de chimie rue de Chartres , 45067 Orl\u00e9ans Cedex 2,","UMR7311, Universit\u00e9 d\u2019Orl\u00e9ans, CNRS Institute of Organic and Analytical Chemistry (ICOA), ,","ICOA - Institut de Chimie Organique et Analytique (UFR Sciences Rue de Chartres - BP 6759 45067 ORLEANS CEDEX 2 - France)"],"affiliations":[{"raw_affiliation_string":"Institute of Organic and Analytical Chemistry (ICOA), UMR7311, Universit\u00e9 d\u2019Orl\u00e9ans, CNRS, P\u00f4le de chimie rue de Chartres , 45067 Orl\u00e9ans Cedex 2,","institution_ids":["https://openalex.org/I4210141565"]},{"raw_affiliation_string":"UMR7311, Universit\u00e9 d\u2019Orl\u00e9ans, CNRS Institute of Organic and Analytical Chemistry (ICOA), ,","institution_ids":["https://openalex.org/I4210141565"]},{"raw_affiliation_string":"ICOA - Institut de Chimie Organique et Analytique (UFR Sciences Rue de Chartres - BP 6759 45067 ORLEANS CEDEX 2 - France)","institution_ids":["https://openalex.org/I4210141565"]}]}],"institutions":[],"countries_distinct_count":4,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5093229802"],"corresponding_institution_ids":["https://openalex.org/I4210141565"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":5.3378,"has_fulltext":true,"cited_by_count":7,"citation_normalized_percentile":{"value":0.96027016,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":100},"biblio":{"volume":"41","issue":"8","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9986000061035156,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9986000061035156,"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":0.9984999895095825,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9936000108718872,"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/leverage","display_name":"Leverage (statistics)","score":0.73853600025177},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7109640836715698},{"id":"https://openalex.org/keywords/test-set","display_name":"Test set","score":0.6528589725494385},{"id":"https://openalex.org/keywords/generalization","display_name":"Generalization","score":0.6097867488861084},{"id":"https://openalex.org/keywords/training-set","display_name":"Training set","score":0.5252006649971008},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.5244439244270325},{"id":"https://openalex.org/keywords/protein-ligand","display_name":"Protein ligand","score":0.521268904209137},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.5097925066947937},{"id":"https://openalex.org/keywords/artificial-neural-network","display_name":"Artificial neural network","score":0.5006036758422852},{"id":"https://openalex.org/keywords/molecular-dynamics","display_name":"Molecular dynamics","score":0.500159502029419},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4963734745979309},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.4646906852722168},{"id":"https://openalex.org/keywords/ligand","display_name":"Ligand (biochemistry)","score":0.44004812836647034},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.36527448892593384},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.20068123936653137},{"id":"https://openalex.org/keywords/computational-chemistry","display_name":"Computational chemistry","score":0.07908037304878235},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.07829311490058899}],"concepts":[{"id":"https://openalex.org/C153083717","wikidata":"https://www.wikidata.org/wiki/Q6535263","display_name":"Leverage (statistics)","level":2,"score":0.73853600025177},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7109640836715698},{"id":"https://openalex.org/C169903167","wikidata":"https://www.wikidata.org/wiki/Q3985153","display_name":"Test set","level":2,"score":0.6528589725494385},{"id":"https://openalex.org/C177148314","wikidata":"https://www.wikidata.org/wiki/Q170084","display_name":"Generalization","level":2,"score":0.6097867488861084},{"id":"https://openalex.org/C51632099","wikidata":"https://www.wikidata.org/wiki/Q3985153","display_name":"Training set","level":2,"score":0.5252006649971008},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.5244439244270325},{"id":"https://openalex.org/C109095088","wikidata":"https://www.wikidata.org/wiki/Q899107","display_name":"Protein ligand","level":2,"score":0.521268904209137},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.5097925066947937},{"id":"https://openalex.org/C50644808","wikidata":"https://www.wikidata.org/wiki/Q192776","display_name":"Artificial neural network","level":2,"score":0.5006036758422852},{"id":"https://openalex.org/C59593255","wikidata":"https://www.wikidata.org/wiki/Q901663","display_name":"Molecular dynamics","level":2,"score":0.500159502029419},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4963734745979309},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.4646906852722168},{"id":"https://openalex.org/C116569031","wikidata":"https://www.wikidata.org/wiki/Q899107","display_name":"Ligand (biochemistry)","level":3,"score":0.44004812836647034},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.36527448892593384},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.20068123936653137},{"id":"https://openalex.org/C147597530","wikidata":"https://www.wikidata.org/wiki/Q369472","display_name":"Computational chemistry","level":1,"score":0.07908037304878235},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.07829311490058899},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.0},{"id":"https://openalex.org/C170493617","wikidata":"https://www.wikidata.org/wiki/Q208467","display_name":"Receptor","level":2,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","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":"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":"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":"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":"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":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":"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":"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":"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":"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":"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":"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":true},{"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":"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":"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":"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":"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":"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":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","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":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","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":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","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":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","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":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","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":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","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":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","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":false},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btaf429","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf429","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btaf429/64084893/btaf429.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:40828893","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40828893","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:HAL:hal-05346168v1","is_oa":true,"landing_page_url":"https://hal.science/hal-05346168","pdf_url":null,"source":{"id":"https://openalex.org/S4406922466","display_name":"SPIRE - Sciences Po Institutional REpository","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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"https://academic.oup.com/bioinformatics/article/41/8/btaf429/8238154?login=true","raw_type":"Journal articles"},{"id":"pmh:oai:europepmc.org:11180396","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12371333","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btaf429","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf429","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btaf429/64084893/btaf429.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/G2424985281","display_name":null,"funder_award_id":"APR-IA-PF 2021-00149467","funder_id":"https://openalex.org/F4320322892","funder_display_name":"Centre National de la Recherche Scientifique"},{"id":"https://openalex.org/G2512310686","display_name":null,"funder_award_id":"018-01","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G2900821844","display_name":null,"funder_award_id":"ANR-11-LABX-0029","funder_id":"https://openalex.org/F4320322892","funder_display_name":"Centre National de la Recherche Scientifique"},{"id":"https://openalex.org/G3807293409","display_name":null,"funder_award_id":"ANR-11-LABX-00","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G6255033851","display_name":null,"funder_award_id":"ANR-11-LABX-0029","funder_id":"https://openalex.org/F4320323373","funder_display_name":"Universit\u00e9 d'Orl\u00e9ans"},{"id":"https://openalex.org/G6577310389","display_name":null,"funder_award_id":"ANR-11-LABX-0018","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G6582749931","display_name":null,"funder_award_id":"FEDER-FSE 2014-2020-EX011313","funder_id":"https://openalex.org/F4320323373","funder_display_name":"Universit\u00e9 d'Orl\u00e9ans"},{"id":"https://openalex.org/G6674960260","display_name":null,"funder_award_id":"11-LABX-0029","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G6851345361","display_name":null,"funder_award_id":"Grant","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G7311628704","display_name":null,"funder_award_id":"2019-00131403","funder_id":"https://openalex.org/F4320322892","funder_display_name":"Centre National de la Recherche Scientifique"},{"id":"https://openalex.org/G7676167426","display_name":null,"funder_award_id":"ANR-11-LABX-0018-01","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G7758152977","display_name":null,"funder_award_id":"support","funder_id":"https://openalex.org/F4320322892","funder_display_name":"Centre National de la Recherche Scientifique"},{"id":"https://openalex.org/G7781532681","display_name":null,"funder_award_id":"ANR-11-LABX-0029","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"}],"funders":[{"id":"https://openalex.org/F4320320883","display_name":"Agence Nationale de la Recherche","ror":"https://ror.org/00rbzpz17"},{"id":"https://openalex.org/F4320322892","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73"},{"id":"https://openalex.org/F4320323373","display_name":"Universit\u00e9 d'Orl\u00e9ans","ror":"https://ror.org/014zrew76"},{"id":"https://openalex.org/F4320326256","display_name":"Grand \u00c9quipement National De Calcul Intensif","ror":"https://ror.org/0010d1q40"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4413344468.pdf","grobid_xml":"https://content.openalex.org/works/W4413344468.grobid-xml"},"referenced_works_count":55,"referenced_works":["https://openalex.org/W2015688756","https://openalex.org/W2018541241","https://openalex.org/W2035687084","https://openalex.org/W2060079863","https://openalex.org/W2092285329","https://openalex.org/W2093381148","https://openalex.org/W2106140689","https://openalex.org/W2112005274","https://openalex.org/W2142868265","https://openalex.org/W2146783323","https://openalex.org/W2147993766","https://openalex.org/W2148512505","https://openalex.org/W2154670681","https://openalex.org/W2332712348","https://openalex.org/W2404280981","https://openalex.org/W2508429489","https://openalex.org/W2521525223","https://openalex.org/W2526925775","https://openalex.org/W2583907533","https://openalex.org/W2594183968","https://openalex.org/W2604320291","https://openalex.org/W2781821160","https://openalex.org/W2784213390","https://openalex.org/W2894566366","https://openalex.org/W2895884529","https://openalex.org/W2902812092","https://openalex.org/W2918239264","https://openalex.org/W2921473648","https://openalex.org/W2937814148","https://openalex.org/W2952072077","https://openalex.org/W2955939175","https://openalex.org/W2969996838","https://openalex.org/W2974531988","https://openalex.org/W2990448843","https://openalex.org/W3021453944","https://openalex.org/W3045085645","https://openalex.org/W3080588469","https://openalex.org/W3082411326","https://openalex.org/W3092809625","https://openalex.org/W3098846260","https://openalex.org/W3126502429","https://openalex.org/W3126954028","https://openalex.org/W3140330522","https://openalex.org/W3203204467","https://openalex.org/W4212835619","https://openalex.org/W4281381643","https://openalex.org/W4281632800","https://openalex.org/W4283013935","https://openalex.org/W4294884038","https://openalex.org/W4317702934","https://openalex.org/W4376129086","https://openalex.org/W4388526626","https://openalex.org/W4389696354","https://openalex.org/W4396789292","https://openalex.org/W4402002930"],"related_works":["https://openalex.org/W1999699871","https://openalex.org/W4225124612","https://openalex.org/W2043806667","https://openalex.org/W2021633306","https://openalex.org/W2006801911","https://openalex.org/W2033669961","https://openalex.org/W2971899271","https://openalex.org/W1972167985","https://openalex.org/W3082253413","https://openalex.org/W2350644419"],"abstract_inverted_index":{"The":[0,9,23],"code":[1],"for":[2,19],"neural":[3],"networks":[4],"is":[5],"available":[6,18],"at":[7,21],"https://github.com/ICOA-SBC/MD_DL_BA.":[8],"models,":[10],"the":[11,14,30],"results":[12],"and":[13],"training/validation/test":[15],"sets":[16],"are":[17,26],"download":[20],"https://zenodo.org/records/10390550.":[22],"MDbind":[24],"trajectories":[25],"being":[27],"transferred":[28],"to":[29],"MDDB:":[31],"https://mmb-dev.mddbr.eu/#/browse?":[32],"option=mdbind.":[33]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":3}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
