{"id":"https://openalex.org/W4406259595","doi":"https://doi.org/10.1109/bibm62325.2024.10821813","title":"PocketLG: Protein Binding Pocket Identification Using Protein Language Model and Graph Transformer","display_name":"PocketLG: Protein Binding Pocket Identification Using Protein Language Model and Graph Transformer","publication_year":2024,"publication_date":"2024-12-03","ids":{"openalex":"https://openalex.org/W4406259595","doi":"https://doi.org/10.1109/bibm62325.2024.10821813"},"language":"en","primary_location":{"id":"doi:10.1109/bibm62325.2024.10821813","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm62325.2024.10821813","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2024 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"},"type":"conference-paper","indexed_in":["crossref"],"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/A5100425772","display_name":"Li Zhang","orcid":"https://orcid.org/0000-0003-4277-0591"},"institutions":[{"id":"https://openalex.org/I4385474403","display_name":"Changchun University of Technology","ror":"https://ror.org/052pakb34","country_code":"CN","type":"education","lineage":["https://openalex.org/I4385474403"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Li Zhang","raw_affiliation_strings":["Changchun University of Technology,College of Computer Science and Engineering,Changchun,China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Changchun University of Technology,College of Computer Science and Engineering,Changchun,China","institution_ids":["https://openalex.org/I4385474403"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110528243","display_name":"Chang Heng","orcid":null},"institutions":[{"id":"https://openalex.org/I4385474403","display_name":"Changchun University of Technology","ror":"https://ror.org/052pakb34","country_code":"CN","type":"education","lineage":["https://openalex.org/I4385474403"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Heng Chang","raw_affiliation_strings":["Changchun University of Technology,College of Computer Science and Engineering,Changchun,China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Changchun University of Technology,College of Computer Science and Engineering,Changchun,China","institution_ids":["https://openalex.org/I4385474403"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041548405","display_name":"Zehua Sun","orcid":"https://orcid.org/0000-0003-4287-1763"},"institutions":[{"id":"https://openalex.org/I184983240","display_name":"Northeast Normal University","ror":"https://ror.org/02rkvz144","country_code":"CN","type":"education","lineage":["https://openalex.org/I184983240"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zehua Sun","raw_affiliation_strings":["Northeast Normal University,School of Information Science and Technology, Institute of Computational Biology,Changchun,China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Northeast Normal University,School of Information Science and Technology, Institute of Computational Biology,Changchun,China","institution_ids":["https://openalex.org/I184983240"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100408983","display_name":"Wenjie Li","orcid":"https://orcid.org/0000-0002-7360-8864"},"institutions":[{"id":"https://openalex.org/I184983240","display_name":"Northeast Normal University","ror":"https://ror.org/02rkvz144","country_code":"CN","type":"education","lineage":["https://openalex.org/I184983240"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Wenjie Li","raw_affiliation_strings":["Northeast Normal University,School of Information Science and Technology, Institute of Computational Biology,Changchun,China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Northeast Normal University,School of Information Science and Technology, Institute of Computational Biology,Changchun,China","institution_ids":["https://openalex.org/I184983240"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100748869","display_name":"Li Zhu","orcid":"https://orcid.org/0000-0001-5249-6536"},"institutions":[{"id":"https://openalex.org/I4210127460","display_name":"Ningxia Medical University","ror":"https://ror.org/02h8a1848","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210127460"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Li Zhu","raw_affiliation_strings":["Ningxia Medical University,The Radiology Department of General Hospital,China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Ningxia Medical University,The Radiology Department of General Hospital,China","institution_ids":["https://openalex.org/I4210127460"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100452754","display_name":"Han Wang","orcid":"https://orcid.org/0000-0003-2420-3147"},"institutions":[{"id":"https://openalex.org/I184983240","display_name":"Northeast Normal University","ror":"https://ror.org/02rkvz144","country_code":"CN","type":"education","lineage":["https://openalex.org/I184983240"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Han Wang","raw_affiliation_strings":["Northeast Normal University,School of Information Science and Technology, Institute of Computational Biology,Changchun,China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Northeast Normal University,School of Information Science and Technology, Institute of Computational Biology,Changchun,China","institution_ids":["https://openalex.org/I184983240"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.3117799,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"154","last_page":"160"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9930999875068665,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9930999875068665,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9800999760627747,"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/T13083","display_name":"Advanced Text Analysis Techniques","score":0.9355000257492065,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"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":0.6619337201118469},{"id":"https://openalex.org/keywords/transformer","display_name":"Transformer","score":0.4881349503993988},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.4256385862827301},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.26658564805984497},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.13544753193855286},{"id":"https://openalex.org/keywords/electrical-engineering","display_name":"Electrical engineering","score":0.11978563666343689}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6619337201118469},{"id":"https://openalex.org/C66322947","wikidata":"https://www.wikidata.org/wiki/Q11658","display_name":"Transformer","level":3,"score":0.4881349503993988},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.4256385862827301},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.26658564805984497},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.13544753193855286},{"id":"https://openalex.org/C119599485","wikidata":"https://www.wikidata.org/wiki/Q43035","display_name":"Electrical engineering","level":1,"score":0.11978563666343689},{"id":"https://openalex.org/C165801399","wikidata":"https://www.wikidata.org/wiki/Q25428","display_name":"Voltage","level":2,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibm62325.2024.10821813","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm62325.2024.10821813","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2024 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320322425","display_name":"Ningxia Medical University","ror":"https://ror.org/02h8a1848"},{"id":"https://openalex.org/F4320335787","display_name":"Fundamental Research Funds for the Central Universities","ror":null},{"id":"https://openalex.org/F4320335953","display_name":"Jilin Scientific and Technological Development Program","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":27,"referenced_works":["https://openalex.org/W1901129140","https://openalex.org/W1975447903","https://openalex.org/W1983304433","https://openalex.org/W2031194866","https://openalex.org/W2043855224","https://openalex.org/W2078176948","https://openalex.org/W2085313140","https://openalex.org/W2091563009","https://openalex.org/W2116341502","https://openalex.org/W2126234813","https://openalex.org/W2128402268","https://openalex.org/W2134967712","https://openalex.org/W2144258433","https://openalex.org/W2160544139","https://openalex.org/W2161151688","https://openalex.org/W2164088236","https://openalex.org/W2587598315","https://openalex.org/W2780845733","https://openalex.org/W3012511738","https://openalex.org/W3165603781","https://openalex.org/W3187966659","https://openalex.org/W4255677297","https://openalex.org/W4312117319","https://openalex.org/W4384819315","https://openalex.org/W4390970175","https://openalex.org/W4393128461","https://openalex.org/W6765474767"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W4391913857","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W4396696052"],"abstract_inverted_index":{"Protein":[0,68],"pocket":[1,78,92,132,146,160,203],"is":[2],"a":[3,10,54,67,82,98,104,168,196],"special":[4],"region":[5],"on":[6,186],"the":[7,26,35,62,77,90,108,115,119,122,127,131,144,155,158,162,211,214],"surface":[8],"of":[9,29,37,117,130,157,213],"protein":[11,30,201],"that":[12,32,177],"commonly":[13],"interacts":[14],"with":[15,137,188],"other":[16],"molecules,":[17],"especially":[18],"small":[19],"molecule":[20],"compounds.":[21],"Accurately":[22],"identifying":[23],"and":[24,71,102,152,222],"understanding":[25],"structure":[27],"character":[28],"pockets,":[31],"can":[33,86,142,166,182,207],"accelerate":[34],"development":[36,212],"new":[38,197],"drugs,":[39],"as":[40,81],"well":[41],"improve":[42],"existing":[43],"drugs":[44],"to":[45,60,106,124,210],"reveal":[46],"disease":[47],"mechanisms.":[48],"In":[49,94],"this":[50],"study,":[51],"we":[52],"propose":[53,97],"deep":[55,179],"learning":[56,180],"method":[57,75,141],"named":[58],"PocketLG,":[59],"identify":[61,89,183],"potential":[63],"binding":[64,184,202],"pockets":[65,136,185],"integrating":[66],"Language":[69],"model":[70,123,181],"Graph":[72],"Transformer.":[73],"The":[74],"constructs":[76],"identification":[79],"task":[80],"regression":[83,163],"problem,":[84],"which":[85,206],"more":[87],"accurately":[88],"real":[91],"boundaries.":[93],"addition,":[95],"We":[96],"data":[99,109,223],"sampling":[100,110],"strategy":[101,113],"construct":[103],"pipeline":[105],"support":[107],"effort.":[111],"This":[112,140,193],"has":[114],"benefit":[116],"augmenting":[118],"data,":[120],"allowing":[121],"better":[125],"learn":[126],"intrinsic":[128],"characteristics":[129],"structure,":[133],"even":[134],"for":[135,171,200],"unknown":[138,145,159],"boundaries":[139],"sample":[143,150],"by":[147,161],"dividing":[148],"different":[149],"sizes":[151],"then":[153],"determine":[154],"boundary":[156],"value,":[164],"it":[165],"be":[167],"direct":[169],"help":[170],"downstream":[172],"tasks.":[173],"Experimental":[174],"results":[175],"show":[176],"our":[178],"proteins":[187],"91":[189],"percent":[190],"success":[191],"rate.":[192],"work":[194],"provides":[195],"technical":[198],"route":[199],"prediction":[204],"research,":[205],"greatly":[208],"contribute":[209],"pharmaceutical":[215],"industry.":[216],"PocketLG":[217],"source":[218],"code,":[219],"pre-trained":[220],"models":[221],"preprocessing":[224],"code":[225],"are":[226],"available":[227],"at":[228],"https://github.com/NENUBioCompute/PocketLG.":[229]},"counts_by_year":[],"updated_date":"2026-07-29T14:22:42.915294","created_date":"2025-10-10T00:00:00"}