{"id":"https://openalex.org/W2536259549","doi":"https://doi.org/10.1186/s13321-016-0167-x","title":"Benchmark of four popular virtual screening programs: construction of the active/decoy dataset remains a major determinant of measured performance","display_name":"Benchmark of four popular virtual screening programs: construction of the active/decoy dataset remains a major determinant of measured performance","publication_year":2016,"publication_date":"2016-10-17","ids":{"openalex":"https://openalex.org/W2536259549","doi":"https://doi.org/10.1186/s13321-016-0167-x","mag":"2536259549","pmid":"https://pubmed.ncbi.nlm.nih.gov/27803745"},"language":"en","primary_location":{"id":"doi:10.1186/s13321-016-0167-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13321-016-0167-x","pdf_url":"https://jcheminf.biomedcentral.com/counter/pdf/10.1186/s13321-016-0167-x","source":{"id":"https://openalex.org/S180838163","display_name":"Journal of Cheminformatics","issn_l":"1758-2946","issn":["1758-2946"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Cheminformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://jcheminf.biomedcentral.com/counter/pdf/10.1186/s13321-016-0167-x","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5032862777","display_name":"Ludovic Chaput","orcid":null},"institutions":[{"id":"https://openalex.org/I102197404","display_name":"Universit\u00e9 Paris-Sud","ror":"https://ror.org/028rypz17","country_code":"FR","type":"education","lineage":["https://openalex.org/I102197404"]},{"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/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I2746051580","display_name":"Universit\u00e9 Paris Sciences et Lettres","ror":"https://ror.org/013cjyk83","country_code":"FR","type":"education","lineage":["https://openalex.org/I2746051580"]},{"id":"https://openalex.org/I80043","display_name":"Institut Curie","ror":"https://ror.org/04t0gwh46","country_code":"FR","type":"nonprofit","lineage":["https://openalex.org/I80043"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Ludovic Chaput","raw_affiliation_strings":["Institut Curie - PSL Research University, Chemistry, Modelling and Imaging for Biology (CMIB), Centre de Recherche, Centre Universitaire, Orsay, B\u00e2timent 112, 91405 Orsay Cedex, France ; Paris-Sud University, Orsay Cedex, France ; Inserm, U1196, Orsay Cedex, France ; CNRS, UMR 9187, Orsay Cedex, France","Institut Curie - PSL Research University, Chemistry, Modelling and Imaging for Biology (CMIB), Centre de Recherche, Centre Universitaire, Orsay, B\u00e2timent 112, 91405, Orsay Cedex, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institut Curie - PSL Research University, Chemistry, Modelling and Imaging for Biology (CMIB), Centre de Recherche, Centre Universitaire, Orsay, B\u00e2timent 112, 91405 Orsay Cedex, France ; Paris-Sud University, Orsay Cedex, France ; Inserm, U1196, Orsay Cedex, France ; CNRS, UMR 9187, Orsay Cedex, France","institution_ids":["https://openalex.org/I154526488","https://openalex.org/I102197404","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Institut Curie - PSL Research University, Chemistry, Modelling and Imaging for Biology (CMIB), Centre de Recherche, Centre Universitaire, Orsay, B\u00e2timent 112, 91405, Orsay Cedex, France","institution_ids":["https://openalex.org/I2746051580","https://openalex.org/I80043"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5106686005","display_name":"Juan Martinez\u2010Sanz","orcid":null},"institutions":[{"id":"https://openalex.org/I102197404","display_name":"Universit\u00e9 Paris-Sud","ror":"https://ror.org/028rypz17","country_code":"FR","type":"education","lineage":["https://openalex.org/I102197404"]},{"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/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I2746051580","display_name":"Universit\u00e9 Paris Sciences et Lettres","ror":"https://ror.org/013cjyk83","country_code":"FR","type":"education","lineage":["https://openalex.org/I2746051580"]},{"id":"https://openalex.org/I80043","display_name":"Institut Curie","ror":"https://ror.org/04t0gwh46","country_code":"FR","type":"nonprofit","lineage":["https://openalex.org/I80043"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Juan Martinez-Sanz","raw_affiliation_strings":["Institut Curie - PSL Research University, Chemistry, Modelling and Imaging for Biology (CMIB), Centre de Recherche, Centre Universitaire, Orsay, B\u00e2timent 112, 91405 Orsay Cedex, France ; Paris-Sud University, Orsay Cedex, France ; Inserm, U1196, Orsay Cedex, France ; CNRS, UMR 9187, Orsay Cedex, France","Institut Curie - PSL Research University, Chemistry, Modelling and Imaging for Biology (CMIB), Centre de Recherche, Centre Universitaire, Orsay, B\u00e2timent 112, 91405, Orsay Cedex, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institut Curie - PSL Research University, Chemistry, Modelling and Imaging for Biology (CMIB), Centre de Recherche, Centre Universitaire, Orsay, B\u00e2timent 112, 91405 Orsay Cedex, France ; Paris-Sud University, Orsay Cedex, France ; Inserm, U1196, Orsay Cedex, France ; CNRS, UMR 9187, Orsay Cedex, France","institution_ids":["https://openalex.org/I154526488","https://openalex.org/I102197404","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Institut Curie - PSL Research University, Chemistry, Modelling and Imaging for Biology (CMIB), Centre de Recherche, Centre Universitaire, Orsay, B\u00e2timent 112, 91405, Orsay Cedex, France","institution_ids":["https://openalex.org/I2746051580","https://openalex.org/I80043"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076063332","display_name":"Nicolas Saettel","orcid":"https://orcid.org/0000-0002-0599-9736"},"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/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I2746051580","display_name":"Universit\u00e9 Paris Sciences et Lettres","ror":"https://ror.org/013cjyk83","country_code":"FR","type":"education","lineage":["https://openalex.org/I2746051580"]},{"id":"https://openalex.org/I80043","display_name":"Institut Curie","ror":"https://ror.org/04t0gwh46","country_code":"FR","type":"nonprofit","lineage":["https://openalex.org/I80043"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Nicolas Saettel","raw_affiliation_strings":["Institut Curie - PSL Research University, Chemistry, Modelling and Imaging for Biology (CMIB), Centre de Recherche, Centre Universitaire, Orsay, B\u00e2timent 112, 91405 Orsay Cedex, France ; Inserm, U1196, Orsay Cedex, France ; CNRS, UMR 9187, Orsay Cedex, France ; School of Pharmacy, University of Caen, Normandy, Boulevard Becquerel, 14032 Caen, France","Institut Curie - PSL Research University, Chemistry, Modelling and Imaging for Biology (CMIB), Centre de Recherche, Centre Universitaire, Orsay, B\u00e2timent 112, 91405, Orsay Cedex, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institut Curie - PSL Research University, Chemistry, Modelling and Imaging for Biology (CMIB), Centre de Recherche, Centre Universitaire, Orsay, B\u00e2timent 112, 91405 Orsay Cedex, France ; Inserm, U1196, Orsay Cedex, France ; CNRS, UMR 9187, Orsay Cedex, France ; School of Pharmacy, University of Caen, Normandy, Boulevard Becquerel, 14032 Caen, France","institution_ids":["https://openalex.org/I154526488","https://openalex.org/I2746051580","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Institut Curie - PSL Research University, Chemistry, Modelling and Imaging for Biology (CMIB), Centre de Recherche, Centre Universitaire, Orsay, B\u00e2timent 112, 91405, Orsay Cedex, France","institution_ids":["https://openalex.org/I2746051580","https://openalex.org/I80043"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5000390428","display_name":"Liliane Mouawad","orcid":"https://orcid.org/0000-0002-7155-9712"},"institutions":[{"id":"https://openalex.org/I102197404","display_name":"Universit\u00e9 Paris-Sud","ror":"https://ror.org/028rypz17","country_code":"FR","type":"education","lineage":["https://openalex.org/I102197404"]},{"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/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I2746051580","display_name":"Universit\u00e9 Paris Sciences et Lettres","ror":"https://ror.org/013cjyk83","country_code":"FR","type":"education","lineage":["https://openalex.org/I2746051580"]},{"id":"https://openalex.org/I80043","display_name":"Institut Curie","ror":"https://ror.org/04t0gwh46","country_code":"FR","type":"nonprofit","lineage":["https://openalex.org/I80043"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Liliane Mouawad","raw_affiliation_strings":["Institut Curie - PSL Research University, Chemistry, Modelling and Imaging for Biology (CMIB), Centre de Recherche, Centre Universitaire, Orsay, B\u00e2timent 112, 91405 Orsay Cedex, France ; Paris-Sud University, Orsay Cedex, France ; Inserm, U1196, Orsay Cedex, France ; CNRS, UMR 9187, Orsay Cedex, France","Institut Curie - PSL Research University, Chemistry, Modelling and Imaging for Biology (CMIB), Centre de Recherche, Centre Universitaire, Orsay, B\u00e2timent 112, 91405, Orsay Cedex, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institut Curie - PSL Research University, Chemistry, Modelling and Imaging for Biology (CMIB), Centre de Recherche, Centre Universitaire, Orsay, B\u00e2timent 112, 91405 Orsay Cedex, France ; Paris-Sud University, Orsay Cedex, France ; Inserm, U1196, Orsay Cedex, France ; CNRS, UMR 9187, Orsay Cedex, France","institution_ids":["https://openalex.org/I154526488","https://openalex.org/I102197404","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Institut Curie - PSL Research University, Chemistry, Modelling and Imaging for Biology (CMIB), Centre de Recherche, Centre Universitaire, Orsay, B\u00e2timent 112, 91405, Orsay Cedex, France","institution_ids":["https://openalex.org/I2746051580","https://openalex.org/I80043"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5000390428"],"corresponding_institution_ids":["https://openalex.org/I102197404","https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I2746051580","https://openalex.org/I80043"],"apc_list":{"value":1290,"currency":"GBP","value_usd":1582},"apc_paid":{"value":1290,"currency":"GBP","value_usd":1582},"fwci":8.651,"has_fulltext":true,"cited_by_count":124,"citation_normalized_percentile":{"value":0.97838282,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":98,"max":100},"biblio":{"volume":"8","issue":"1","first_page":"56","last_page":"56"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9390000104904175,"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":0.9390000104904175,"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":0.02290000021457672,"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/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.003100000089034438,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/virtual-screening","display_name":"Virtual screening","score":0.8863892555236816},{"id":"https://openalex.org/keywords/benchmarking","display_name":"Benchmarking","score":0.6695173978805542},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6440305113792419},{"id":"https://openalex.org/keywords/decoy","display_name":"Decoy","score":0.6189266443252563},{"id":"https://openalex.org/keywords/docking","display_name":"Docking (animal)","score":0.5277543663978577},{"id":"https://openalex.org/keywords/metric","display_name":"Metric (unit)","score":0.4886026978492737},{"id":"https://openalex.org/keywords/benchmark","display_name":"Benchmark (surveying)","score":0.47237470746040344},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.38898199796676636},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.37176233530044556},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.3698223829269409},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.2032037377357483},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.18871191143989563},{"id":"https://openalex.org/keywords/drug-discovery","display_name":"Drug discovery","score":0.14849629998207092},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.13586801290512085},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.10779693722724915},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.09165316820144653}],"concepts":[{"id":"https://openalex.org/C103697762","wikidata":"https://www.wikidata.org/wiki/Q4112105","display_name":"Virtual screening","level":3,"score":0.8863892555236816},{"id":"https://openalex.org/C86251818","wikidata":"https://www.wikidata.org/wiki/Q816754","display_name":"Benchmarking","level":2,"score":0.6695173978805542},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6440305113792419},{"id":"https://openalex.org/C2779179475","wikidata":"https://www.wikidata.org/wiki/Q3545649","display_name":"Decoy","level":3,"score":0.6189266443252563},{"id":"https://openalex.org/C41685203","wikidata":"https://www.wikidata.org/wiki/Q1974042","display_name":"Docking (animal)","level":2,"score":0.5277543663978577},{"id":"https://openalex.org/C176217482","wikidata":"https://www.wikidata.org/wiki/Q860554","display_name":"Metric (unit)","level":2,"score":0.4886026978492737},{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.47237470746040344},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.38898199796676636},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.37176233530044556},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.3698223829269409},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.2032037377357483},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.18871191143989563},{"id":"https://openalex.org/C74187038","wikidata":"https://www.wikidata.org/wiki/Q1418791","display_name":"Drug discovery","level":2,"score":0.14849629998207092},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.13586801290512085},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.10779693722724915},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.09165316820144653},{"id":"https://openalex.org/C144133560","wikidata":"https://www.wikidata.org/wiki/Q4830453","display_name":"Business","level":0,"score":0.0},{"id":"https://openalex.org/C162853370","wikidata":"https://www.wikidata.org/wiki/Q39809","display_name":"Marketing","level":1,"score":0.0},{"id":"https://openalex.org/C21547014","wikidata":"https://www.wikidata.org/wiki/Q1423657","display_name":"Operations management","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},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"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/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0},{"id":"https://openalex.org/C159110408","wikidata":"https://www.wikidata.org/wiki/Q121176","display_name":"Nursing","level":1,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1186/s13321-016-0167-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13321-016-0167-x","pdf_url":"https://jcheminf.biomedcentral.com/counter/pdf/10.1186/s13321-016-0167-x","source":{"id":"https://openalex.org/S180838163","display_name":"Journal of Cheminformatics","issn_l":"1758-2946","issn":["1758-2946"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Cheminformatics","raw_type":"journal-article"},{"id":"pmid:27803745","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27803745","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 cheminformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:5066283","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5066283","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":"J Cheminform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s13321-016-0167-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13321-016-0167-x","pdf_url":"https://jcheminf.biomedcentral.com/counter/pdf/10.1186/s13321-016-0167-x","source":{"id":"https://openalex.org/S180838163","display_name":"Journal of Cheminformatics","issn_l":"1758-2946","issn":["1758-2946"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Cheminformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3938339082","display_name":null,"funder_award_id":"ANR-11-CARN-008-01","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"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2536259549.pdf","grobid_xml":"https://content.openalex.org/works/W2536259549.grobid-xml"},"referenced_works_count":36,"referenced_works":["https://openalex.org/W1527820925","https://openalex.org/W1596348044","https://openalex.org/W1968319881","https://openalex.org/W1972156862","https://openalex.org/W1973191530","https://openalex.org/W1974809008","https://openalex.org/W1985588649","https://openalex.org/W1986476355","https://openalex.org/W1988744515","https://openalex.org/W2009423060","https://openalex.org/W2014952106","https://openalex.org/W2018989832","https://openalex.org/W2025458374","https://openalex.org/W2035292911","https://openalex.org/W2042110087","https://openalex.org/W2050456292","https://openalex.org/W2058433776","https://openalex.org/W2058820833","https://openalex.org/W2061865181","https://openalex.org/W2071717945","https://openalex.org/W2081266727","https://openalex.org/W2082437718","https://openalex.org/W2086729168","https://openalex.org/W2093426296","https://openalex.org/W2107506448","https://openalex.org/W2114779636","https://openalex.org/W2120898782","https://openalex.org/W2121895929","https://openalex.org/W2127322768","https://openalex.org/W2127760066","https://openalex.org/W2166410137","https://openalex.org/W2167901867","https://openalex.org/W2280552799","https://openalex.org/W2400913246","https://openalex.org/W2582743722","https://openalex.org/W4233037448"],"related_works":["https://openalex.org/W2088388996","https://openalex.org/W2124981562","https://openalex.org/W2187341605","https://openalex.org/W2114320488","https://openalex.org/W3005094479","https://openalex.org/W1973364873","https://openalex.org/W2803139007","https://openalex.org/W2088647418","https://openalex.org/W2773493604","https://openalex.org/W1963920545"],"abstract_inverted_index":{"BACKGROUND:":[0],"In":[1],"a":[2,18,34,89,213,243],"structure-based":[3],"virtual":[4,46,286,305,343],"screening,":[5],"the":[6,9,15,41,57,86,96,99,102,130,157,160,163,168,172,177,180,183,186,192,195,199,207,210,224,227,241,276,309,339,346,355,359,377],"choice":[7],"of":[8,17,37,43,59,71,98,162,182,201,212,226,230,245,271,285,338,358,364],"docking":[10],"program":[11,93],"is":[12,54,312,380],"essential":[13],"for":[14,138,142,145,149,249,253,258,264,304],"success":[16],"hit":[19],"identification.":[20],"Benchmarks":[21],"are":[22,238,278,382,392,394],"meant":[23],"to":[24,82,170,221,295,327],"help":[25],"in":[26,85,179,383,395],"guiding":[27],"this":[28],"choice,":[29],"especially":[30],"when":[31,275,376,386],"undertaken":[32],"on":[33,112,129,156,167,354],"large":[35],"variety":[36],"protein":[38,164],"targets.":[39],"Here,":[40],"performance":[42,152,229,268,320],"four":[44,273,347],"popular":[45],"screening":[47,287,306,344],"programs,":[48,348],"Gold,":[49,202,350],"Glide,":[50,349],"Surflex":[51,148,203,263,351],"and":[52,76,95,147,194,204,215,260,262,316,323,332,352,385],"FlexX,":[53,353],"compared":[55],"using":[56],"Directory":[58],"Useful":[60],"Decoys-Enhanced":[61],"database":[62,379],"(DUD-E),":[63],"which":[64,171,250],"includes":[65],"102":[66,356],"targets":[67,100,234,247,357,365,387],"with":[68,115,123,235,345,366,370,388],"an":[69],"average":[70],"224":[72],"ligands":[73],"per":[74,79],"target":[75,214],"50":[77],"decoys":[78,196],"ligand,":[80],"generated":[81],"avoid":[83],"biases":[84,237,277],"benchmarking.":[87],"Then,":[88],"relationship":[90],"between":[91,191,209],"these":[92],"performances":[94,291],"properties":[97],"or":[101],"small":[103,187],"molecules":[104],"was":[105,110],"investigated.":[106],"RESULTS:":[107],"The":[108,120,151,267,362],"comparison":[109],"based":[111],"two":[113],"metrics,":[114],"three":[116],"different":[117],"parameters":[118],"each.":[119],"BEDROC":[121],"scores":[122],"\u03b1":[124],"=":[125,372],"80.5,":[126],"indicated":[127],"that,":[128],"overall":[131],"database,":[132,185],"Glide":[133,251,315],"succeeded":[134,252],"(score":[135],">":[136,374],"0.5)":[137],"30":[139],"targets,":[140,256],"Gold":[141,257,317],"27,":[143],"FlexX":[144,261,322],"14":[146],"11.":[150],"did":[153],"not":[154],"depend":[155],"hydrophobicity":[158],"nor":[159],"openness":[161],"cavities,":[165],"neither":[166],"families":[169],"proteins":[173],"belong.":[174],"However,":[175],"despite":[176,308],"care":[178],"construction":[181],"DUD-E":[184,360],"differences":[188],"that":[189,281,311],"remain":[190],"actives":[193,211],"likely":[197],"explain":[198],"successes":[200],"FlexX.":[205],"Moreover,":[206],"similarity":[208],"its":[216],"crystal":[217],"structure":[218],"ligand":[219],"seems":[220],"be":[222,293],"at":[223],"basis":[225],"good":[228,290],"Glide.":[231],"When":[232],"all":[233,272],"significant":[236],"removed":[239,279,393],"from":[240],"benchmarking,":[242],"subset":[244],"47":[246],"remains,":[248],"only":[254],"5":[255],"4":[259],"2.":[265],"CONCLUSION:":[266],"dramatic":[269],"drop":[270],"programs":[274,331],"shows":[280],"we":[282],"should":[283],"beware":[284],"benchmarks,":[288],"because":[289],"may":[292],"due":[294],"wrong":[296],"reasons.":[297],"Therefore,":[298],"benchmarking":[299],"would":[300],"hardly":[301],"provide":[302],"guidelines":[303],"experiments,":[307],"tendency":[310],"maintained,":[313],"i.e.,":[314,369],"display":[318],"better":[319],"than":[321],"Surflex.":[324],"We":[325],"recommend":[326],"always":[328],"use":[329],"several":[330],"combine":[333],"their":[334],"results.":[335],"Graphical":[336],"AbstractSummary":[337],"results":[340],"obtained":[341],"by":[342],"database.":[361],"percentage":[363],"successful":[367],"results,":[368],"BDEROC(\u03b1":[371],"80.5)":[373],"0.5,":[375],"entire":[378],"considered":[381],"Blue,":[384],"biased":[389],"chemical":[390],"libraries":[391],"Red.":[396]},"counts_by_year":[{"year":2026,"cited_by_count":8},{"year":2025,"cited_by_count":10},{"year":2024,"cited_by_count":13},{"year":2023,"cited_by_count":9},{"year":2022,"cited_by_count":17},{"year":2021,"cited_by_count":16},{"year":2020,"cited_by_count":27},{"year":2019,"cited_by_count":8},{"year":2018,"cited_by_count":10},{"year":2017,"cited_by_count":6}],"updated_date":"2026-06-19T17:40:00.097472","created_date":"2025-10-10T00:00:00"}
