{"id":"https://openalex.org/W4361266198","doi":"https://doi.org/10.1021/acs.jcim.3c00004","title":"Benchmarking <i>In Silico</i> Tools for Cysteine p <i>K</i> <sub>a</sub> Prediction","display_name":"Benchmarking <i>In Silico</i> Tools for Cysteine p <i>K</i> <sub>a</sub> Prediction","publication_year":2023,"publication_date":"2023-03-30","ids":{"openalex":"https://openalex.org/W4361266198","doi":"https://doi.org/10.1021/acs.jcim.3c00004","pmid":"https://pubmed.ncbi.nlm.nih.gov/36996330"},"language":"en","primary_location":{"id":"doi:10.1021/acs.jcim.3c00004","is_oa":false,"landing_page_url":"https://doi.org/10.1021/acs.jcim.3c00004","pdf_url":null,"source":{"id":"https://openalex.org/S167262187","display_name":"Journal of Chemical Information and Modeling","issn_l":"1549-9596","issn":["1549-9596","1549-960X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Modeling","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5065514882","display_name":"Ernest Awoonor\u2010Williams","orcid":"https://orcid.org/0000-0002-9127-8539"},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Ernest Awoonor-Williams","raw_affiliation_strings":["Novartis Institutes for BioMedical Research, 181 Massachusetts Avenue, Cambridge, Massachusetts 02139, United States"],"raw_orcid":"https://orcid.org/0000-0002-9127-8539","affiliations":[{"raw_affiliation_string":"Novartis Institutes for BioMedical Research, 181 Massachusetts Avenue, Cambridge, Massachusetts 02139, United States","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053977995","display_name":"Andrei A. Golosov","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Andrei A. Golosov","raw_affiliation_strings":["Novartis Institutes for BioMedical Research, 181 Massachusetts Avenue, Cambridge, Massachusetts 02139, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Novartis Institutes for BioMedical Research, 181 Massachusetts Avenue, Cambridge, Massachusetts 02139, United States","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5069016592","display_name":"Viktor Horn\u0306\u00e1k","orcid":"https://orcid.org/0000-0002-2344-9586"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Viktor Hornak","raw_affiliation_strings":["Novartis Institutes for BioMedical Research, 181 Massachusetts Avenue, Cambridge, Massachusetts 02139, United States"],"raw_orcid":"https://orcid.org/0000-0002-2344-9586","affiliations":[{"raw_affiliation_string":"Novartis Institutes for BioMedical Research, 181 Massachusetts Avenue, Cambridge, Massachusetts 02139, United States","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5065514882"],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":3.7366,"has_fulltext":false,"cited_by_count":25,"citation_normalized_percentile":{"value":0.93540107,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":98,"max":99},"biblio":{"volume":"63","issue":"7","first_page":"2170","last_page":"2180"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9993000030517578,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9993000030517578,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9977999925613403,"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/cysteine","display_name":"Cysteine","score":0.8283003568649292},{"id":"https://openalex.org/keywords/in-silico","display_name":"In silico","score":0.6967273950576782},{"id":"https://openalex.org/keywords/benchmark","display_name":"Benchmark (surveying)","score":0.5760664343833923},{"id":"https://openalex.org/keywords/drug-discovery","display_name":"Drug discovery","score":0.5288777351379395},{"id":"https://openalex.org/keywords/benchmarking","display_name":"Benchmarking","score":0.4875795245170593},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.46882009506225586},{"id":"https://openalex.org/keywords/test-set","display_name":"Test set","score":0.4179849624633789},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.3880718946456909},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3494288921356201},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.2985614836215973},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.22375598549842834},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.17691949009895325},{"id":"https://openalex.org/keywords/enzyme","display_name":"Enzyme","score":0.10991421341896057}],"concepts":[{"id":"https://openalex.org/C2779201268","wikidata":"https://www.wikidata.org/wiki/Q186474","display_name":"Cysteine","level":3,"score":0.8283003568649292},{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.6967273950576782},{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.5760664343833923},{"id":"https://openalex.org/C74187038","wikidata":"https://www.wikidata.org/wiki/Q1418791","display_name":"Drug discovery","level":2,"score":0.5288777351379395},{"id":"https://openalex.org/C86251818","wikidata":"https://www.wikidata.org/wiki/Q816754","display_name":"Benchmarking","level":2,"score":0.4875795245170593},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.46882009506225586},{"id":"https://openalex.org/C169903167","wikidata":"https://www.wikidata.org/wiki/Q3985153","display_name":"Test set","level":2,"score":0.4179849624633789},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.3880718946456909},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3494288921356201},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.2985614836215973},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.22375598549842834},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.17691949009895325},{"id":"https://openalex.org/C181199279","wikidata":"https://www.wikidata.org/wiki/Q8047","display_name":"Enzyme","level":2,"score":0.10991421341896057},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"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/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"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}],"mesh":[{"descriptor_ui":"D003545","descriptor_name":"Cysteine","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D003545","descriptor_name":"Cysteine","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D003545","descriptor_name":"Cysteine","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":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":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D050505","descriptor_name":"Mutant Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D050505","descriptor_name":"Mutant Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D050505","descriptor_name":"Mutant Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1021/acs.jcim.3c00004","is_oa":false,"landing_page_url":"https://doi.org/10.1021/acs.jcim.3c00004","pdf_url":null,"source":{"id":"https://openalex.org/S167262187","display_name":"Journal of Chemical Information and Modeling","issn_l":"1549-9596","issn":["1549-9596","1549-960X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Modeling","raw_type":"journal-article"},{"id":"pmid:36996330","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36996330","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of chemical information and modeling","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":77,"referenced_works":["https://openalex.org/W116310202","https://openalex.org/W248383993","https://openalex.org/W1031578623","https://openalex.org/W1554784061","https://openalex.org/W1574152255","https://openalex.org/W1965354567","https://openalex.org/W1969884384","https://openalex.org/W1979860484","https://openalex.org/W1980114322","https://openalex.org/W1994105222","https://openalex.org/W1998166222","https://openalex.org/W1998294214","https://openalex.org/W1998408986","https://openalex.org/W2002611021","https://openalex.org/W2014042350","https://openalex.org/W2028964260","https://openalex.org/W2029079594","https://openalex.org/W2032427406","https://openalex.org/W2054534830","https://openalex.org/W2056728743","https://openalex.org/W2057664120","https://openalex.org/W2066451762","https://openalex.org/W2076218928","https://openalex.org/W2078145018","https://openalex.org/W2080584906","https://openalex.org/W2086455899","https://openalex.org/W2090063868","https://openalex.org/W2094259887","https://openalex.org/W2111069533","https://openalex.org/W2114003088","https://openalex.org/W2117458899","https://openalex.org/W2120715487","https://openalex.org/W2130479394","https://openalex.org/W2132397429","https://openalex.org/W2142412838","https://openalex.org/W2144288821","https://openalex.org/W2152997175","https://openalex.org/W2159689520","https://openalex.org/W2160907977","https://openalex.org/W2166478478","https://openalex.org/W2167319220","https://openalex.org/W2167854315","https://openalex.org/W2187318534","https://openalex.org/W2190363753","https://openalex.org/W2212681463","https://openalex.org/W2315466337","https://openalex.org/W2318603372","https://openalex.org/W2327581403","https://openalex.org/W2330799739","https://openalex.org/W2511955955","https://openalex.org/W2516944943","https://openalex.org/W2517550655","https://openalex.org/W2598528124","https://openalex.org/W2762419582","https://openalex.org/W2767829222","https://openalex.org/W2884072597","https://openalex.org/W2893189760","https://openalex.org/W2904506792","https://openalex.org/W2916884115","https://openalex.org/W2917685269","https://openalex.org/W2923759574","https://openalex.org/W2973195589","https://openalex.org/W3018223376","https://openalex.org/W3046751266","https://openalex.org/W3048193491","https://openalex.org/W3082580455","https://openalex.org/W3109620969","https://openalex.org/W3203691553","https://openalex.org/W4205794662","https://openalex.org/W4211079109","https://openalex.org/W4220734384","https://openalex.org/W4220811910","https://openalex.org/W4285589483","https://openalex.org/W4297879991","https://openalex.org/W4300689034","https://openalex.org/W4307840887","https://openalex.org/W4315630737"],"related_works":["https://openalex.org/W4238897586","https://openalex.org/W435179959","https://openalex.org/W2619091065","https://openalex.org/W2059640416","https://openalex.org/W1490753184","https://openalex.org/W2284465472","https://openalex.org/W2291782699","https://openalex.org/W1993948687","https://openalex.org/W2011676020","https://openalex.org/W4313855081"],"abstract_inverted_index":{"estimation.":[0],"Given":[1],"the":[2],"limited":[3],"accuracy":[4],"of":[5],"these":[6,13],"methods,":[7],"further":[8],"development":[9],"is":[10],"needed":[11],"before":[12],"approaches":[14],"can":[15],"be":[16],"routinely":[17],"employed":[18],"to":[19],"drive":[20],"design":[21],"decisions":[22],"in":[23],"early":[24],"drug":[25],"discovery":[26],"efforts.":[27]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":10},{"year":2024,"cited_by_count":7},{"year":2023,"cited_by_count":5}],"updated_date":"2026-04-28T14:05:53.105641","created_date":"2025-10-10T00:00:00"}
