{"id":"https://openalex.org/W2914877211","doi":"https://doi.org/10.1371/journal.pcbi.1006718","title":"DeepDrug3D: Classification of ligand-binding pockets in proteins with a convolutional neural network","display_name":"DeepDrug3D: Classification of ligand-binding pockets in proteins with a convolutional neural network","publication_year":2019,"publication_date":"2019-02-04","ids":{"openalex":"https://openalex.org/W2914877211","doi":"https://doi.org/10.1371/journal.pcbi.1006718","mag":"2914877211","pmid":"https://pubmed.ncbi.nlm.nih.gov/30716081"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1006718","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1006718","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1006718&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1006718&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5108268424","display_name":"Limeng Pu","orcid":"https://orcid.org/0009-0002-1744-9325"},"institutions":[{"id":"https://openalex.org/I121820613","display_name":"Louisiana State University","ror":"https://ror.org/05ect4e57","country_code":"US","type":"education","lineage":["https://openalex.org/I121820613"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Limeng Pu","raw_affiliation_strings":["Division of Electrical & Computer Engineering, Louisiana State University, Baton Rouge, LA, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Electrical & Computer Engineering, Louisiana State University, Baton Rouge, LA, United States of America","institution_ids":["https://openalex.org/I121820613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075881953","display_name":"Rajiv Gandhi Govindaraj","orcid":"https://orcid.org/0000-0003-2364-5429"},"institutions":[{"id":"https://openalex.org/I121820613","display_name":"Louisiana State University","ror":"https://ror.org/05ect4e57","country_code":"US","type":"education","lineage":["https://openalex.org/I121820613"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Rajiv Gandhi Govindaraj","raw_affiliation_strings":["Department of Biological Sciences, Louisiana State University, Baton Rouge, LA, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biological Sciences, Louisiana State University, Baton Rouge, LA, United States of America","institution_ids":["https://openalex.org/I121820613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061732129","display_name":"Jeffrey Lemoine","orcid":"https://orcid.org/0000-0002-9632-8419"},"institutions":[{"id":"https://openalex.org/I121820613","display_name":"Louisiana State University","ror":"https://ror.org/05ect4e57","country_code":"US","type":"education","lineage":["https://openalex.org/I121820613"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jeffrey Mitchell Lemoine","raw_affiliation_strings":["Department of Biological Sciences, Louisiana State University, Baton Rouge, LA, United States of America","Division of Computer Science and Engineering, Louisiana State University, Baton Rouge, LA, United States of America"],"raw_orcid":"https://orcid.org/0000-0002-9632-8419","affiliations":[{"raw_affiliation_string":"Department of Biological Sciences, Louisiana State University, Baton Rouge, LA, United States of America","institution_ids":["https://openalex.org/I121820613"]},{"raw_affiliation_string":"Division of Computer Science and Engineering, Louisiana State University, Baton Rouge, LA, United States of America","institution_ids":["https://openalex.org/I121820613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040614086","display_name":"Hsiao\u2010Chun Wu","orcid":"https://orcid.org/0000-0002-0178-1246"},"institutions":[{"id":"https://openalex.org/I121820613","display_name":"Louisiana State University","ror":"https://ror.org/05ect4e57","country_code":"US","type":"education","lineage":["https://openalex.org/I121820613"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hsiao-Chun Wu","raw_affiliation_strings":["Division of Electrical & Computer Engineering, Louisiana State University, Baton Rouge, LA, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Electrical & Computer Engineering, Louisiana State University, Baton Rouge, LA, United States of America","institution_ids":["https://openalex.org/I121820613"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5033579800","display_name":"Micha\u0142 Bryli\u0144ski","orcid":"https://orcid.org/0000-0002-6204-2869"},"institutions":[{"id":"https://openalex.org/I121820613","display_name":"Louisiana State University","ror":"https://ror.org/05ect4e57","country_code":"US","type":"education","lineage":["https://openalex.org/I121820613"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Michal Brylinski","raw_affiliation_strings":["Center for Computation & Technology, Louisiana State University, Baton Rouge, LA, United States of America","Department of Biological Sciences, Louisiana State University, Baton Rouge, LA, United States of America"],"raw_orcid":"https://orcid.org/0000-0002-6204-2869","affiliations":[{"raw_affiliation_string":"Center for Computation & Technology, Louisiana State University, Baton Rouge, LA, United States of America","institution_ids":["https://openalex.org/I121820613"]},{"raw_affiliation_string":"Department of Biological Sciences, Louisiana State University, Baton Rouge, LA, United States of America","institution_ids":["https://openalex.org/I121820613"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5033579800"],"corresponding_institution_ids":["https://openalex.org/I121820613"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":16.3754,"has_fulltext":true,"cited_by_count":136,"citation_normalized_percentile":{"value":0.99374051,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"15","issue":"2","first_page":"e1006718","last_page":"e1006718"},"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9994000196456909,"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/T11948","display_name":"Machine Learning in Materials Science","score":0.9957000017166138,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/convolutional-neural-network","display_name":"Convolutional neural network","score":0.5875608921051025},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5769730806350708},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5628212094306946},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5230523347854614},{"id":"https://openalex.org/keywords/discriminative-model","display_name":"Discriminative model","score":0.46466338634490967},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.4634535014629364},{"id":"https://openalex.org/keywords/binding-site","display_name":"Binding site","score":0.41842490434646606},{"id":"https://openalex.org/keywords/ligand","display_name":"Ligand (biochemistry)","score":0.41735589504241943},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.375651478767395},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.3596850037574768},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.32248827815055847},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.228922039270401},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.1633133888244629}],"concepts":[{"id":"https://openalex.org/C81363708","wikidata":"https://www.wikidata.org/wiki/Q17084460","display_name":"Convolutional neural network","level":2,"score":0.5875608921051025},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5769730806350708},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5628212094306946},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5230523347854614},{"id":"https://openalex.org/C97931131","wikidata":"https://www.wikidata.org/wiki/Q5282087","display_name":"Discriminative model","level":2,"score":0.46466338634490967},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.4634535014629364},{"id":"https://openalex.org/C107824862","wikidata":"https://www.wikidata.org/wiki/Q616005","display_name":"Binding site","level":2,"score":0.41842490434646606},{"id":"https://openalex.org/C116569031","wikidata":"https://www.wikidata.org/wiki/Q899107","display_name":"Ligand (biochemistry)","level":3,"score":0.41735589504241943},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.375651478767395},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.3596850037574768},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.32248827815055847},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.228922039270401},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.1633133888244629},{"id":"https://openalex.org/C170493617","wikidata":"https://www.wikidata.org/wiki/Q208467","display_name":"Receptor","level":2,"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":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":"Q000502","qualifier_name":"physiology","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":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"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":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":11,"locations":[{"id":"doi:10.1371/journal.pcbi.1006718","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1006718","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1006718&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:30716081","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30716081","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:digitalcommons.lsu.edu:biosci_pubs-1615","is_oa":true,"landing_page_url":"https://digitalcommons.lsu.edu/biosci_pubs/616","pdf_url":"https://digitalcommons.lsu.edu/cgi/viewcontent.cgi?article=1615&context=biosci_pubs","source":{"id":"https://openalex.org/S4210169993","display_name":"Civil War Book Review","issn_l":"1528-6592","issn":["1528-6592"],"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/P4310315936","host_organization_name":"Louisiana State University","host_organization_lineage":["https://openalex.org/P4310315936"],"host_organization_lineage_names":["Louisiana State University"],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Faculty Publications","raw_type":"text"},{"id":"pmh:oai:digitalcommons.lsu.edu:eecs_pubs-2441","is_oa":true,"landing_page_url":"https://digitalcommons.lsu.edu/eecs_pubs/1439","pdf_url":null,"source":{"id":"https://openalex.org/S4210169993","display_name":"Civil War Book Review","issn_l":"1528-6592","issn":["1528-6592"],"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/P4310315936","host_organization_name":"Louisiana State University","host_organization_lineage":["https://openalex.org/P4310315936"],"host_organization_lineage_names":["Louisiana State University"],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Faculty Publications","raw_type":"text"},{"id":"pmh:oai:digitalcommons.lsu.edu:plantsoil_pubs-1005","is_oa":true,"landing_page_url":"https://digitalcommons.lsu.edu/plantsoil_pubs/6","pdf_url":null,"source":{"id":"https://openalex.org/S4210169993","display_name":"Civil War Book Review","issn_l":"1528-6592","issn":["1528-6592"],"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/P4310315936","host_organization_name":"Louisiana State University","host_organization_lineage":["https://openalex.org/P4310315936"],"host_organization_lineage_names":["Louisiana State University"],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Faculty Publications","raw_type":"text"},{"id":"pmh:oai:doaj.org/article:bdeba66fe3ff49e7bd677e3cc524d74e","is_oa":true,"landing_page_url":"https://doaj.org/article/bdeba66fe3ff49e7bd677e3cc524d74e","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","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-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 15, Iss 2, p e1006718 (2019)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:5379721","is_oa":true,"landing_page_url":"http://europepmc.org/pmc/articles/PMC6375647","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":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:6375647","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6375647","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"},{"id":"pmh:oai:repository.lsu.edu:biosci_pubs-1615","is_oa":true,"landing_page_url":"https://repository.lsu.edu/biosci_pubs/616","pdf_url":null,"source":{"id":"https://openalex.org/S4210169993","display_name":"Civil War Book Review","issn_l":"1528-6592","issn":["1528-6592"],"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/P4310315936","host_organization_name":"Louisiana State University","host_organization_lineage":["https://openalex.org/P4310315936"],"host_organization_lineage_names":["Louisiana State University"],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Faculty Publications","raw_type":"text"},{"id":"pmh:oai:repository.lsu.edu:eecs_pubs-2441","is_oa":true,"landing_page_url":"https://repository.lsu.edu/eecs_pubs/1439","pdf_url":null,"source":{"id":"https://openalex.org/S4210169993","display_name":"Civil War Book Review","issn_l":"1528-6592","issn":["1528-6592"],"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/P4310315936","host_organization_name":"Louisiana State University","host_organization_lineage":["https://openalex.org/P4310315936"],"host_organization_lineage_names":["Louisiana State University"],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Faculty Publications","raw_type":"text"},{"id":"pmh:oai:repository.lsu.edu:plantsoil_pubs-1005","is_oa":true,"landing_page_url":"https://repository.lsu.edu/plantsoil_pubs/6","pdf_url":null,"source":{"id":"https://openalex.org/S4210169993","display_name":"Civil War Book Review","issn_l":"1528-6592","issn":["1528-6592"],"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/P4310315936","host_organization_name":"Louisiana State University","host_organization_lineage":["https://openalex.org/P4310315936"],"host_organization_lineage_names":["Louisiana State University"],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Faculty Publications","raw_type":"text"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1006718","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1006718","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1006718&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Reduced inequalities","id":"https://metadata.un.org/sdg/10","score":0.6000000238418579}],"awards":[{"id":"https://openalex.org/G4181709541","display_name":null,"funder_award_id":"R35GM119524","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G5490367575","display_name":null,"funder_award_id":"R35GM119524","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320310395","display_name":"Louisiana State University","ror":"https://ror.org/05ect4e57"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2914877211.pdf","grobid_xml":"https://content.openalex.org/works/W2914877211.grobid-xml"},"referenced_works_count":98,"referenced_works":["https://openalex.org/W204889168","https://openalex.org/W853235284","https://openalex.org/W1191502296","https://openalex.org/W1497222700","https://openalex.org/W1522301498","https://openalex.org/W1572091120","https://openalex.org/W1598796236","https://openalex.org/W1606947757","https://openalex.org/W1677182931","https://openalex.org/W1980969309","https://openalex.org/W1982309045","https://openalex.org/W1983194490","https://openalex.org/W1986199568","https://openalex.org/W1990060072","https://openalex.org/W2005902428","https://openalex.org/W2009313526","https://openalex.org/W2009588152","https://openalex.org/W2010912389","https://openalex.org/W2015147525","https://openalex.org/W2018661561","https://openalex.org/W2021375645","https://openalex.org/W2023327385","https://openalex.org/W2024234109","https://openalex.org/W2033856912","https://openalex.org/W2037652830","https://openalex.org/W2038634077","https://openalex.org/W2045231577","https://openalex.org/W2049334204","https://openalex.org/W2059981954","https://openalex.org/W2075260011","https://openalex.org/W2087727263","https://openalex.org/W2091950883","https://openalex.org/W2098312592","https://openalex.org/W2103072895","https://openalex.org/W2105668062","https://openalex.org/W2107158607","https://openalex.org/W2109553965","https://openalex.org/W2111078532","https://openalex.org/W2111762125","https://openalex.org/W2114162221","https://openalex.org/W2115540209","https://openalex.org/W2117077088","https://openalex.org/W2117724788","https://openalex.org/W2118023920","https://openalex.org/W2120138074","https://openalex.org/W2125079066","https://openalex.org/W2128117524","https://openalex.org/W2130479394","https://openalex.org/W2132395520","https://openalex.org/W2134967712","https://openalex.org/W2136750916","https://openalex.org/W2143254097","https://openalex.org/W2144258433","https://openalex.org/W2145268834","https://openalex.org/W2149539590","https://openalex.org/W2150341604","https://openalex.org/W2151550848","https://openalex.org/W2152105636","https://openalex.org/W2156125289","https://openalex.org/W2157122545","https://openalex.org/W2158714788","https://openalex.org/W2161151688","https://openalex.org/W2161239029","https://openalex.org/W2163605009","https://openalex.org/W2164088236","https://openalex.org/W2169678694","https://openalex.org/W2171004217","https://openalex.org/W2176522635","https://openalex.org/W2183341477","https://openalex.org/W2194775991","https://openalex.org/W2211722331","https://openalex.org/W2295107390","https://openalex.org/W2312513464","https://openalex.org/W2322633051","https://openalex.org/W2335469959","https://openalex.org/W2398198205","https://openalex.org/W2417429787","https://openalex.org/W2467118059","https://openalex.org/W2558217333","https://openalex.org/W2562997947","https://openalex.org/W2608351113","https://openalex.org/W2617750324","https://openalex.org/W2618574054","https://openalex.org/W2727758171","https://openalex.org/W2771782493","https://openalex.org/W2784213390","https://openalex.org/W2785269871","https://openalex.org/W2793261026","https://openalex.org/W2835515562","https://openalex.org/W2882976371","https://openalex.org/W2889325774","https://openalex.org/W2889498145","https://openalex.org/W2903833871","https://openalex.org/W2951395093","https://openalex.org/W4205947740","https://openalex.org/W6631190155","https://openalex.org/W7052052310","https://openalex.org/W7073868599"],"related_works":["https://openalex.org/W2965546495","https://openalex.org/W4389116644","https://openalex.org/W2153315159","https://openalex.org/W3103844505","https://openalex.org/W259157601","https://openalex.org/W4226493464","https://openalex.org/W3133861977","https://openalex.org/W2951211570","https://openalex.org/W3103566983","https://openalex.org/W2025584407"],"abstract_inverted_index":{"Comprehensive":[0],"characterization":[1],"of":[2,11,58,60,94,138,155,178,182,196],"ligand-binding":[3],"sites":[4,75],"is":[5,80,209],"invaluable":[6],"to":[7,21,41,54,71,86,105,141,162,164],"infer":[8],"molecular":[9,198],"functions":[10],"hypothetical":[12],"proteins,":[13,18],"trace":[14],"evolutionary":[15],"relationships":[16],"between":[17],"engineer":[19],"enzymes":[20],"achieve":[22],"a":[23,82,91,102,118,152],"desired":[24],"substrate":[25],"specificity,":[26],"and":[27,107,143,146,172,205],"develop":[28],"drugs":[29],"with":[30,113,217],"improved":[31],"selectivity":[32],"profiles.":[33],"These":[34],"research":[35],"efforts":[36],"pose":[37],"significant":[38,83],"challenges":[39],"owing":[40],"the":[42,55,64,160,176,194,218],"fact":[43],"that":[44,67,186],"similar":[45],"pockets":[46,110,184],"are":[47,76,127],"commonly":[48],"observed":[49],"across":[50],"different":[51],"folds,":[52],"leading":[53],"high":[56,153,188],"degree":[57],"promiscuity":[59],"ligand-protein":[61],"interactions":[62],"at":[63,215],"system-level.":[65],"On":[66],"account,":[68],"novel":[69],"algorithms":[70],"accurately":[72],"classify":[73,108,144],"binding":[74,109,183],"needed.":[77],"Deep":[78],"learning":[79,193],"attracting":[81],"attention":[84],"due":[85],"its":[87],"successful":[88],"applications":[89],"in":[90,111,123],"wide":[92],"range":[93],"disciplines.":[95],"In":[96],"this":[97,187],"communication,":[98],"we":[99],"present":[100],"DeepDrug3D,":[101,139],"new":[103],"approach":[104],"characterize":[106],"proteins":[112,171],"deep":[114],"learning.":[115],"It":[116],"employs":[117],"state-of-the-art":[119],"convolutional":[120],"neural":[121],"network":[122],"which":[124],"biomolecular":[125],"structures":[126],"represented":[128],"as":[129,167,201,211],"voxels":[130],"assigned":[131],"interaction":[132],"energy-based":[133],"attributes.":[134],"The":[135],"current":[136],"implementation":[137],"trained":[140],"detect":[142],"nucleotide-":[145],"heme-binding":[147],"sites,":[148],"not":[149],"only":[150],"achieves":[151],"accuracy":[154,190],"95%,":[156],"but":[157],"also":[158],"has":[159],"ability":[161],"generalize":[163],"unseen":[165],"data":[166],"demonstrated":[168],"for":[169],"steroid-binding":[170],"peptidase":[173],"enzymes.":[174],"Interestingly,":[175],"analysis":[177],"strongly":[179],"discriminative":[180],"regions":[181],"reveals":[185],"classification":[189],"arises":[191],"from":[192,224],"patterns":[195],"specific":[197],"interactions,":[199],"such":[200],"hydrogen":[202],"bonds,":[203],"aromatic":[204],"hydrophobic":[206],"contacts.":[207],"DeepDrug3D":[208],"available":[210],"an":[212],"open-source":[213],"program":[214],"https://github.com/pulimeng/DeepDrug3D":[216],"accompanying":[219],"TOUGH-C1":[220],"benchmarking":[221],"dataset":[222],"accessible":[223],"https://osf.io/enz69/.":[225]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":11},{"year":2024,"cited_by_count":24},{"year":2023,"cited_by_count":17},{"year":2022,"cited_by_count":30},{"year":2021,"cited_by_count":22},{"year":2020,"cited_by_count":22},{"year":2019,"cited_by_count":7}],"updated_date":"2026-05-16T08:24:45.110214","created_date":"2025-10-10T00:00:00"}
