{"id":"https://openalex.org/W4401793374","doi":"https://doi.org/10.1093/bib/bbae408","title":"GR-p<i>K</i>a: a message-passing neural network with retention mechanism for p<i>K</i>a prediction","display_name":"GR-p<i>K</i>a: a message-passing neural network with retention mechanism for p<i>K</i>a prediction","publication_year":2024,"publication_date":"2024-07-25","ids":{"openalex":"https://openalex.org/W4401793374","doi":"https://doi.org/10.1093/bib/bbae408","pmid":"https://pubmed.ncbi.nlm.nih.gov/39171986"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbae408","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae408","pdf_url":"https://academic.oup.com/bib/article-pdf/25/5/bbae408/58888921/bbae408.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in 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/bib/article-pdf/25/5/bbae408/58888921/bbae408.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5047846003","display_name":"Runyu Miao","orcid":"https://orcid.org/0000-0001-9954-7150"},"institutions":[{"id":"https://openalex.org/I143593769","display_name":"East China University of Science and Technology","ror":"https://ror.org/01vyrm377","country_code":"CN","type":"education","lineage":["https://openalex.org/I143593769"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Runyu Miao","raw_affiliation_strings":["East China University of Science and Technology , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","Shanghai Key Laboratory of New Drug Design , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, No. 130, Meilong Road, Xuhui District, Shanghai, 200237, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"East China University of Science and Technology , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","institution_ids":["https://openalex.org/I143593769"]},{"raw_affiliation_string":"Shanghai Key Laboratory of New Drug Design , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","institution_ids":["https://openalex.org/I143593769"]},{"raw_affiliation_string":"Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, No. 130, Meilong Road, Xuhui District, Shanghai, 200237, China","institution_ids":["https://openalex.org/I143593769"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5113344380","display_name":"Danlin Liu","orcid":null},"institutions":[{"id":"https://openalex.org/I4210141816","display_name":"Central Hospital of Putuo District","ror":"https://ror.org/04nwd2p56","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210141816"]},{"id":"https://openalex.org/I66867065","display_name":"East China Normal University","ror":"https://ror.org/02n96ep67","country_code":"CN","type":"education","lineage":["https://openalex.org/I66867065"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Danlin Liu","raw_affiliation_strings":["East China Normal University , School of Pharmacy, , No. 3663, Zhongshan North Road, Putuo District, Shanghai, 200062 , China","Innovation Center for AI and Drug Discovery , School of Pharmacy, , No. 3663, Zhongshan North Road, Putuo District, Shanghai, 200062 , China","School of Computer Science and Technology, East China Normal University , No. 3663, Zhongshan North Road, Putuo District, Shanghai, 200062 , China","Innovation Center for AI and Drug Discovery, School of Pharmacy, East China Normal University, No. 3663, Zhongshan North Road, Putuo District, Shanghai, 200062, China","School of Computer Science and Technology, East China Normal University, No. 3663, Zhongshan North Road, Putuo District, Shanghai, 200062, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"East China Normal University , School of Pharmacy, , No. 3663, Zhongshan North Road, Putuo District, Shanghai, 200062 , China","institution_ids":["https://openalex.org/I66867065"]},{"raw_affiliation_string":"Innovation Center for AI and Drug Discovery , School of Pharmacy, , No. 3663, Zhongshan North Road, Putuo District, Shanghai, 200062 , China","institution_ids":["https://openalex.org/I4210141816"]},{"raw_affiliation_string":"School of Computer Science and Technology, East China Normal University , No. 3663, Zhongshan North Road, Putuo District, Shanghai, 200062 , China","institution_ids":["https://openalex.org/I66867065"]},{"raw_affiliation_string":"Innovation Center for AI and Drug Discovery, School of Pharmacy, East China Normal University, No. 3663, Zhongshan North Road, Putuo District, Shanghai, 200062, China","institution_ids":["https://openalex.org/I66867065"]},{"raw_affiliation_string":"School of Computer Science and Technology, East China Normal University, No. 3663, Zhongshan North Road, Putuo District, Shanghai, 200062, China","institution_ids":["https://openalex.org/I66867065"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5114212192","display_name":"Liyun Mao","orcid":null},"institutions":[{"id":"https://openalex.org/I143593769","display_name":"East China University of Science and Technology","ror":"https://ror.org/01vyrm377","country_code":"CN","type":"education","lineage":["https://openalex.org/I143593769"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Liyun Mao","raw_affiliation_strings":["East China University of Science and Technology , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","Shanghai Key Laboratory of New Drug Design , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, No. 130, Meilong Road, Xuhui District, Shanghai, 200237, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"East China University of Science and Technology , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","institution_ids":["https://openalex.org/I143593769"]},{"raw_affiliation_string":"Shanghai Key Laboratory of New Drug Design , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","institution_ids":["https://openalex.org/I143593769"]},{"raw_affiliation_string":"Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, No. 130, Meilong Road, Xuhui District, Shanghai, 200237, China","institution_ids":["https://openalex.org/I143593769"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100387360","display_name":"Xingyu Chen","orcid":"https://orcid.org/0009-0008-1719-5875"},"institutions":[{"id":"https://openalex.org/I143593769","display_name":"East China University of Science and Technology","ror":"https://ror.org/01vyrm377","country_code":"CN","type":"education","lineage":["https://openalex.org/I143593769"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xingyu Chen","raw_affiliation_strings":["East China University of Science and Technology , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","Shanghai Key Laboratory of New Drug Design , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, No. 130, Meilong Road, Xuhui District, Shanghai, 200237, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"East China University of Science and Technology , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","institution_ids":["https://openalex.org/I143593769"]},{"raw_affiliation_string":"Shanghai Key Laboratory of New Drug Design , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","institution_ids":["https://openalex.org/I143593769"]},{"raw_affiliation_string":"Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, No. 130, Meilong Road, Xuhui District, Shanghai, 200237, China","institution_ids":["https://openalex.org/I143593769"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111298230","display_name":"Leihao Zhang","orcid":null},"institutions":[{"id":"https://openalex.org/I143593769","display_name":"East China University of Science and Technology","ror":"https://ror.org/01vyrm377","country_code":"CN","type":"education","lineage":["https://openalex.org/I143593769"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Leihao Zhang","raw_affiliation_strings":["East China University of Science and Technology , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","Shanghai Key Laboratory of New Drug Design , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, No. 130, Meilong Road, Xuhui District, Shanghai, 200237, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"East China University of Science and Technology , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","institution_ids":["https://openalex.org/I143593769"]},{"raw_affiliation_string":"Shanghai Key Laboratory of New Drug Design , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","institution_ids":["https://openalex.org/I143593769"]},{"raw_affiliation_string":"Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, No. 130, Meilong Road, Xuhui District, Shanghai, 200237, China","institution_ids":["https://openalex.org/I143593769"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066791258","display_name":"Zhen Yuan","orcid":null},"institutions":[{"id":"https://openalex.org/I143593769","display_name":"East China University of Science and Technology","ror":"https://ror.org/01vyrm377","country_code":"CN","type":"education","lineage":["https://openalex.org/I143593769"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhen Yuan","raw_affiliation_strings":["East China University of Science and Technology , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","Shanghai Key Laboratory of New Drug Design , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, No. 130, Meilong Road, Xuhui District, Shanghai, 200237, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"East China University of Science and Technology , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","institution_ids":["https://openalex.org/I143593769"]},{"raw_affiliation_string":"Shanghai Key Laboratory of New Drug Design , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","institution_ids":["https://openalex.org/I143593769"]},{"raw_affiliation_string":"Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, No. 130, Meilong Road, Xuhui District, Shanghai, 200237, China","institution_ids":["https://openalex.org/I143593769"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101894017","display_name":"Shanshan Shi","orcid":"https://orcid.org/0000-0003-1508-6620"},"institutions":[{"id":"https://openalex.org/I143593769","display_name":"East China University of Science and Technology","ror":"https://ror.org/01vyrm377","country_code":"CN","type":"education","lineage":["https://openalex.org/I143593769"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shanshan Shi","raw_affiliation_strings":["East China University of Science and Technology , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","Shanghai Key Laboratory of New Drug Design , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, No. 130, Meilong Road, Xuhui District, Shanghai, 200237, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"East China University of Science and Technology , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","institution_ids":["https://openalex.org/I143593769"]},{"raw_affiliation_string":"Shanghai Key Laboratory of New Drug Design , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","institution_ids":["https://openalex.org/I143593769"]},{"raw_affiliation_string":"Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, No. 130, Meilong Road, Xuhui District, Shanghai, 200237, China","institution_ids":["https://openalex.org/I143593769"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100688144","display_name":"Honglin Li","orcid":"https://orcid.org/0000-0003-2270-1900"},"institutions":[{"id":"https://openalex.org/I143593769","display_name":"East China University of Science and Technology","ror":"https://ror.org/01vyrm377","country_code":"CN","type":"education","lineage":["https://openalex.org/I143593769"]},{"id":"https://openalex.org/I4210098460","display_name":"Shanghai University of Traditional Chinese Medicine","ror":"https://ror.org/00z27jk27","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210098460"]},{"id":"https://openalex.org/I4210133418","display_name":"Yueyang Hospital","ror":"https://ror.org/03yd12021","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210133418"]},{"id":"https://openalex.org/I4210141816","display_name":"Central Hospital of Putuo District","ror":"https://ror.org/04nwd2p56","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210141816"]},{"id":"https://openalex.org/I66867065","display_name":"East China Normal University","ror":"https://ror.org/02n96ep67","country_code":"CN","type":"education","lineage":["https://openalex.org/I66867065"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Honglin Li","raw_affiliation_strings":["East China Normal University , School of Pharmacy, , No. 3663, Zhongshan North Road, Putuo District, Shanghai, 200062 , China","East China University of Science and Technology , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","Innovation Center for AI and Drug Discovery , School of Pharmacy, , No. 3663, Zhongshan North Road, Putuo District, Shanghai, 200062 , China","Lingang Laboratory , No. 319, Yueyang Road, Xuhui District, Shanghai , 200031, China","Shanghai Key Laboratory of New Drug Design , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","Innovation Center for AI and Drug Discovery, School of Pharmacy, East China Normal University, No. 3663, Zhongshan North Road, Putuo District, Shanghai, 200062, China","Lingang Laboratory, No. 319, Yueyang Road, Xuhui District, Shanghai, 200031, China","Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, No. 130, Meilong Road, Xuhui District, Shanghai, 200237, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"East China Normal University , School of Pharmacy, , No. 3663, Zhongshan North Road, Putuo District, Shanghai, 200062 , China","institution_ids":["https://openalex.org/I66867065"]},{"raw_affiliation_string":"East China University of Science and Technology , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","institution_ids":["https://openalex.org/I143593769"]},{"raw_affiliation_string":"Innovation Center for AI and Drug Discovery , School of Pharmacy, , No. 3663, Zhongshan North Road, Putuo District, Shanghai, 200062 , China","institution_ids":["https://openalex.org/I4210141816"]},{"raw_affiliation_string":"Lingang Laboratory , No. 319, Yueyang Road, Xuhui District, Shanghai , 200031, China","institution_ids":["https://openalex.org/I4210098460","https://openalex.org/I4210133418"]},{"raw_affiliation_string":"Shanghai Key Laboratory of New Drug Design , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","institution_ids":["https://openalex.org/I143593769"]},{"raw_affiliation_string":"Innovation Center for AI and Drug Discovery, School of Pharmacy, East China Normal University, No. 3663, Zhongshan North Road, Putuo District, Shanghai, 200062, China","institution_ids":["https://openalex.org/I66867065"]},{"raw_affiliation_string":"Lingang Laboratory, No. 319, Yueyang Road, Xuhui District, Shanghai, 200031, China","institution_ids":["https://openalex.org/I4210098460","https://openalex.org/I4210133418"]},{"raw_affiliation_string":"Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, No. 130, Meilong Road, Xuhui District, Shanghai, 200237, China","institution_ids":["https://openalex.org/I143593769"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5103257865","display_name":"Shiliang Li","orcid":"https://orcid.org/0000-0003-4414-237X"},"institutions":[{"id":"https://openalex.org/I143593769","display_name":"East China University of Science and Technology","ror":"https://ror.org/01vyrm377","country_code":"CN","type":"education","lineage":["https://openalex.org/I143593769"]},{"id":"https://openalex.org/I4210099446","display_name":"Huadong Hospital","ror":"https://ror.org/012wm7481","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210099446"]},{"id":"https://openalex.org/I4210141816","display_name":"Central Hospital of Putuo District","ror":"https://ror.org/04nwd2p56","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210141816"]},{"id":"https://openalex.org/I66867065","display_name":"East China Normal University","ror":"https://ror.org/02n96ep67","country_code":"CN","type":"education","lineage":["https://openalex.org/I66867065"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Shiliang Li","raw_affiliation_strings":["Department of Pain management , HuaDong Hospital affiliated to Fudan University, No. 221, West Yan'an Road, Jing'an District, Shanghai, 200040, China","East China Normal University , School of Pharmacy, , No. 3663, Zhongshan North Road, Putuo District, Shanghai, 200062 , China","East China University of Science and Technology , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","Innovation Center for AI and Drug Discovery , School of Pharmacy, , No. 3663, Zhongshan North Road, Putuo District, Shanghai, 200062 , China","Shanghai Key Laboratory of New Drug Design , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","Department of Pain management, HuaDong Hospital affiliated to Fudan University, No. 221, West Yan'an Road, Jing'an District, Shanghai, 200040, China","Innovation Center for AI and Drug Discovery, School of Pharmacy, East China Normal University, No. 3663, Zhongshan North Road, Putuo District, Shanghai, 200062, China","Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, No. 130, Meilong Road, Xuhui District, Shanghai, 200237, China"],"raw_orcid":"https://orcid.org/0000-0003-4414-237X","affiliations":[{"raw_affiliation_string":"Department of Pain management , HuaDong Hospital affiliated to Fudan University, No. 221, West Yan'an Road, Jing'an District, Shanghai, 200040, China","institution_ids":["https://openalex.org/I4210099446"]},{"raw_affiliation_string":"East China Normal University , School of Pharmacy, , No. 3663, Zhongshan North Road, Putuo District, Shanghai, 200062 , China","institution_ids":["https://openalex.org/I66867065"]},{"raw_affiliation_string":"East China University of Science and Technology , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","institution_ids":["https://openalex.org/I143593769"]},{"raw_affiliation_string":"Innovation Center for AI and Drug Discovery , School of Pharmacy, , No. 3663, Zhongshan North Road, Putuo District, Shanghai, 200062 , China","institution_ids":["https://openalex.org/I4210141816"]},{"raw_affiliation_string":"Shanghai Key Laboratory of New Drug Design , School of Pharmacy, , No. 130, Meilong Road, Xuhui District, Shanghai, 200237 , China","institution_ids":["https://openalex.org/I143593769"]},{"raw_affiliation_string":"Department of Pain management, HuaDong Hospital affiliated to Fudan University, No. 221, West Yan'an Road, Jing'an District, Shanghai, 200040, China","institution_ids":["https://openalex.org/I4210099446"]},{"raw_affiliation_string":"Innovation Center for AI and Drug Discovery, School of Pharmacy, East China Normal University, No. 3663, Zhongshan North Road, Putuo District, Shanghai, 200062, China","institution_ids":["https://openalex.org/I66867065"]},{"raw_affiliation_string":"Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, No. 130, Meilong Road, Xuhui District, Shanghai, 200237, China","institution_ids":["https://openalex.org/I143593769"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5100688144","https://openalex.org/A5103257865"],"corresponding_institution_ids":["https://openalex.org/I143593769","https://openalex.org/I4210098460","https://openalex.org/I4210099446","https://openalex.org/I4210133418","https://openalex.org/I4210141816","https://openalex.org/I66867065"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":2.7912,"has_fulltext":true,"cited_by_count":11,"citation_normalized_percentile":{"value":0.91495556,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":100},"biblio":{"volume":"25","issue":"5","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9417999982833862,"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":0.9417999982833862,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6602861881256104},{"id":"https://openalex.org/keywords/artificial-neural-network","display_name":"Artificial neural network","score":0.5601022839546204},{"id":"https://openalex.org/keywords/mechanism","display_name":"Mechanism (biology)","score":0.5317142605781555},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.36481690406799316},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.35214000940322876}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6602861881256104},{"id":"https://openalex.org/C50644808","wikidata":"https://www.wikidata.org/wiki/Q192776","display_name":"Artificial neural network","level":2,"score":0.5601022839546204},{"id":"https://openalex.org/C89611455","wikidata":"https://www.wikidata.org/wiki/Q6804646","display_name":"Mechanism (biology)","level":2,"score":0.5317142605781555},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.36481690406799316},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.35214000940322876},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D013816","descriptor_name":"Thermodynamics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013816","descriptor_name":"Thermodynamics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013816","descriptor_name":"Thermodynamics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013816","descriptor_name":"Thermodynamics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013816","descriptor_name":"Thermodynamics","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":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbae408","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae408","pdf_url":"https://academic.oup.com/bib/article-pdf/25/5/bbae408/58888921/bbae408.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:39171986","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39171986","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":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:11339865","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11339865","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11339865/pdf/bbae408.pdf","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":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbae408","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae408","pdf_url":"https://academic.oup.com/bib/article-pdf/25/5/bbae408/58888921/bbae408.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Good health and well-being","score":0.44999998807907104,"id":"https://metadata.un.org/sdg/3"}],"awards":[{"id":"https://openalex.org/G1440936925","display_name":null,"funder_award_id":"82173690","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5636376179","display_name":null,"funder_award_id":"23QA1402800","funder_id":"https://openalex.org/F4320327803","funder_display_name":"Shanghai Rising-Star Program"},{"id":"https://openalex.org/G5888007046","display_name":null,"funder_award_id":"8242510018","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6772398578","display_name":null,"funder_award_id":"82150208","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320327803","display_name":"Shanghai Rising-Star Program","ror":null}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4401793374.pdf","grobid_xml":"https://content.openalex.org/works/W4401793374.grobid-xml"},"referenced_works_count":40,"referenced_works":["https://openalex.org/W2023262034","https://openalex.org/W2027423337","https://openalex.org/W2041427844","https://openalex.org/W2103337999","https://openalex.org/W2140796250","https://openalex.org/W2152420636","https://openalex.org/W2161937681","https://openalex.org/W2200017991","https://openalex.org/W2336166576","https://openalex.org/W2767891136","https://openalex.org/W2886213433","https://openalex.org/W2896864964","https://openalex.org/W2948035163","https://openalex.org/W2968734407","https://openalex.org/W2973634761","https://openalex.org/W2981483652","https://openalex.org/W2981873522","https://openalex.org/W3006560560","https://openalex.org/W3021400221","https://openalex.org/W3033046473","https://openalex.org/W3043542545","https://openalex.org/W3119658996","https://openalex.org/W3131512346","https://openalex.org/W3137551757","https://openalex.org/W3157403564","https://openalex.org/W3181755904","https://openalex.org/W3206377390","https://openalex.org/W3206500648","https://openalex.org/W4282053982","https://openalex.org/W4297179124","https://openalex.org/W4308931182","https://openalex.org/W4322102662","https://openalex.org/W4388455891","https://openalex.org/W4388615774","https://openalex.org/W4390221451","https://openalex.org/W6703286218","https://openalex.org/W6739901393","https://openalex.org/W6768233172","https://openalex.org/W6849934322","https://openalex.org/W6855009501"],"related_works":["https://openalex.org/W4387497383","https://openalex.org/W2948807893","https://openalex.org/W2778153218","https://openalex.org/W2748952813","https://openalex.org/W1531601525","https://openalex.org/W4391375266","https://openalex.org/W2078814861","https://openalex.org/W2527526854","https://openalex.org/W1976181487","https://openalex.org/W1986764834"],"abstract_inverted_index":{"During":[0],"the":[1,7,25,38,57,62,73,104,112,174,179,185,230],"drug":[2],"discovery":[3],"and":[4,31,34,47,59,76,84,93,109,138,162,190,216,223],"design":[5],"process,":[6],"acid-base":[8],"dissociation":[9],"constant":[10],"(pKa)":[11],"of":[12,41,61,79,107,115,214,221,227],"a":[13,88,123,134,140,209,224],"molecule":[14],"is":[15,44],"critically":[16],"emphasized":[17],"due":[18],"to":[19,71,100,144,159,167,188],"its":[20],"crucial":[21],"role":[22],"in":[23,55,68,201],"influencing":[24],"ADMET":[26],"(absorption,":[27],"distribution,":[28],"metabolism,":[29],"excretion,":[30],"toxicity)":[32],"properties":[33,78,157],"biological":[35],"activity.":[36],"However,":[37],"experimental":[39],"determination":[40],"pKa":[42,97,125,148],"values":[43,98],"often":[45],"laborious":[46],"complex.":[48],"Moreover,":[49],"existing":[50],"prediction":[51,126],"methods":[52],"exhibit":[53],"limitations":[54],"both":[56],"quantity":[58],"quality":[60],"training":[63],"data,":[64],"as":[65,67,164],"well":[66],"their":[69],"capacity":[70],"handle":[72],"complex":[74],"structural":[75,105],"physicochemical":[77],"compounds,":[80],"consequently":[81],"impeding":[82],"accuracy":[83],"generalization.":[85],"Therefore,":[86],"developing":[87],"method":[89],"that":[90],"can":[91],"quickly":[92],"accurately":[94,145],"predict":[95,146],"molecular":[96,147,160,192],"will":[99],"some":[101],"extent":[102],"help":[103],"modification":[106],"molecules,":[108],"thus":[110],"assist":[111],"development":[113],"process":[114],"new":[116],"drugs.":[117],"In":[118],"this":[119],"study,":[120],"we":[121,171],"developed":[122],"cutting-edge":[124],"model":[127,152,196],"named":[128],"GR-pKa":[129,151,195],"(Graph":[130],"Retention":[131],"pKa),":[132],"leveraging":[133],"message-passing":[135,180],"neural":[136],"network":[137],"employing":[139],"multi-fidelity":[141],"learning":[142],"strategy":[143],"values.":[149],"The":[150],"incorporates":[153],"five":[154],"quantum":[155],"mechanical":[156],"related":[158],"thermodynamics":[161],"dynamics":[163],"key":[165],"features":[166],"characterize":[168],"molecules.":[169],"Notably,":[170],"originally":[172],"introduced":[173],"novel":[175],"retention":[176],"mechanism":[177],"into":[178],"phase,":[181],"which":[182],"significantly":[183],"improves":[184],"model's":[186],"ability":[187],"capture":[189],"update":[191],"information.":[193],"Our":[194],"outperforms":[197],"several":[198],"state-of-the-art":[199],"models":[200],"predicting":[202],"macro-pKa":[203],"values,":[204],"achieving":[205],"impressive":[206],"results":[207],"with":[208],"low":[210],"mean":[211,218],"absolute":[212],"error":[213,220],"0.490":[215],"root":[217],"square":[219],"0.588,":[222],"high":[225],"R2":[226],"0.937":[228],"on":[229],"SAMPL7":[231],"dataset.":[232]},"counts_by_year":[{"year":2026,"cited_by_count":8},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":1}],"updated_date":"2026-07-29T09:40:50.615796","created_date":"2024-08-23T00:00:00"}
