{"id":"https://openalex.org/W4307180312","doi":"https://doi.org/10.1093/bib/bbac444","title":"Alignment-free metal ion-binding site prediction from protein sequence through pretrained language model and multi-task learning","display_name":"Alignment-free metal ion-binding site prediction from protein sequence through pretrained language model and multi-task learning","publication_year":2022,"publication_date":"2022-09-20","ids":{"openalex":"https://openalex.org/W4307180312","doi":"https://doi.org/10.1093/bib/bbac444","pmid":"https://pubmed.ncbi.nlm.nih.gov/36274238"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbac444","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbac444","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"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":null,"license_id":null,"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":"green","oa_url":"http://hdl.handle.net/10072/419386","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5079232368","display_name":"Qianmu Yuan","orcid":"https://orcid.org/0000-0001-6098-9103"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qianmu Yuan","raw_affiliation_strings":["School of Computer Science and Engineering at Sun Yat-sen University , Guangzhou 510000, China"],"raw_orcid":"https://orcid.org/0000-0001-6098-9103","affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering at Sun Yat-sen University , Guangzhou 510000, China","institution_ids":["https://openalex.org/I157773358"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002074153","display_name":"Sheng Chen","orcid":"https://orcid.org/0000-0003-1428-6778"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Sheng Chen","raw_affiliation_strings":["School of Computer Science and Engineering at Sun Yat-sen University , Guangzhou 510000, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering at Sun Yat-sen University , Guangzhou 510000, China","institution_ids":["https://openalex.org/I157773358"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053242621","display_name":"Yu Wang","orcid":"https://orcid.org/0000-0003-4976-9366"},"institutions":[{"id":"https://openalex.org/I4210136793","display_name":"Peng Cheng Laboratory","ror":"https://ror.org/03qdqbt06","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210136793"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yu Wang","raw_affiliation_strings":["Peng Cheng National Laboratory at Shenzhen , Guangzhou 510000, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Peng Cheng National Laboratory at Shenzhen , Guangzhou 510000, China","institution_ids":["https://openalex.org/I4210136793"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076568855","display_name":"Huiying Zhao","orcid":"https://orcid.org/0000-0001-9429-3016"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]},{"id":"https://openalex.org/I4210097354","display_name":"Sun Yat-sen Memorial Hospital","ror":"https://ror.org/01px77p81","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210097354"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Huiying Zhao","raw_affiliation_strings":["Sun Yat-sen Memorial Hospital at Sun Yat-sen University , Guangzhou 510000, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Sun Yat-sen Memorial Hospital at Sun Yat-sen University , Guangzhou 510000, China","institution_ids":["https://openalex.org/I4210097354","https://openalex.org/I157773358"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5023539493","display_name":"Yuedong Yang","orcid":"https://orcid.org/0000-0002-6782-2813"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Yuedong Yang","raw_affiliation_strings":["School of Computer Science and Engineering, Sun Yat-sen University, Guangzhou 510000, China, and Key Laboratory of Machine Intelligence and Advanced Computing of MOE, Sun Yat-sen University , Guangzhou 510000, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Sun Yat-sen University, Guangzhou 510000, China, and Key Laboratory of Machine Intelligence and Advanced Computing of MOE, Sun Yat-sen University , Guangzhou 510000, China","institution_ids":["https://openalex.org/I157773358"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5023539493","https://openalex.org/A5076568855"],"corresponding_institution_ids":["https://openalex.org/I157773358","https://openalex.org/I4210097354"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":8.9809,"has_fulltext":false,"cited_by_count":63,"citation_normalized_percentile":{"value":0.98397225,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"23","issue":"6","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":0.9980999827384949,"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":0.9980999827384949,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9980000257492065,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9976999759674072,"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/computer-science","display_name":"Computer science","score":0.650036096572876},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.6106874942779541},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.5686399340629578},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.47216862440109253},{"id":"https://openalex.org/keywords/sequence-learning","display_name":"Sequence learning","score":0.45498576760292053},{"id":"https://openalex.org/keywords/sequence-labeling","display_name":"Sequence labeling","score":0.4393536150455475},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.42332929372787476},{"id":"https://openalex.org/keywords/sequence-motif","display_name":"Sequence motif","score":0.4147886633872986},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.3814672827720642},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3658933639526367},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.34761887788772583},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.27863025665283203},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.16708415746688843},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.11621689796447754},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.10441303253173828}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.650036096572876},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.6106874942779541},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.5686399340629578},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.47216862440109253},{"id":"https://openalex.org/C40506919","wikidata":"https://www.wikidata.org/wiki/Q7452469","display_name":"Sequence learning","level":2,"score":0.45498576760292053},{"id":"https://openalex.org/C35639132","wikidata":"https://www.wikidata.org/wiki/Q7452468","display_name":"Sequence labeling","level":3,"score":0.4393536150455475},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.42332929372787476},{"id":"https://openalex.org/C117745874","wikidata":"https://www.wikidata.org/wiki/Q901612","display_name":"Sequence motif","level":3,"score":0.4147886633872986},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.3814672827720642},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3658933639526367},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.34761887788772583},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.27863025665283203},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.16708415746688843},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.11621689796447754},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.10441303253173828},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.0},{"id":"https://openalex.org/C201995342","wikidata":"https://www.wikidata.org/wiki/Q682496","display_name":"Systems engineering","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007477","descriptor_name":"Ions","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D007477","descriptor_name":"Ions","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D007477","descriptor_name":"Ions","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D007802","descriptor_name":"Language","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D007802","descriptor_name":"Language","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D007802","descriptor_name":"Language","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008670","descriptor_name":"Metals","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008670","descriptor_name":"Metals","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008670","descriptor_name":"Metals","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008670","descriptor_name":"Metals","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D008670","descriptor_name":"Metals","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D008670","descriptor_name":"Metals","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","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":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbac444","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbac444","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:36274238","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36274238","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:research-repository.griffith.edu.au:10072/419386","is_oa":true,"landing_page_url":"http://hdl.handle.net/10072/419386","pdf_url":null,"source":{"id":"https://openalex.org/S4306402548","display_name":"Griffith Research Online (Griffith University, Queensland, Australia)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I11701301","host_organization_name":"Griffith University","host_organization_lineage":["https://openalex.org/I11701301"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Journal article"}],"best_oa_location":{"id":"pmh:oai:research-repository.griffith.edu.au:10072/419386","is_oa":true,"landing_page_url":"http://hdl.handle.net/10072/419386","pdf_url":null,"source":{"id":"https://openalex.org/S4306402548","display_name":"Griffith Research Online (Griffith University, Queensland, Australia)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I11701301","host_organization_name":"Griffith University","host_organization_lineage":["https://openalex.org/I11701301"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Journal article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/4","score":0.5899999737739563,"display_name":"Quality Education"}],"awards":[{"id":"https://openalex.org/G3931435871","display_name":null,"funder_award_id":"2020YFB0204803","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"},{"id":"https://openalex.org/G5108781970","display_name":null,"funder_award_id":"61772566","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7142395142","display_name":null,"funder_award_id":"62041209","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/F4320335777","display_name":"National Key Research and Development Program of China","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":63,"referenced_works":["https://openalex.org/W1904666106","https://openalex.org/W1966716734","https://openalex.org/W1972978214","https://openalex.org/W2008708467","https://openalex.org/W2018661561","https://openalex.org/W2019971393","https://openalex.org/W2022871655","https://openalex.org/W2029964710","https://openalex.org/W2043638247","https://openalex.org/W2051210555","https://openalex.org/W2052498582","https://openalex.org/W2064186839","https://openalex.org/W2070370023","https://openalex.org/W2076048958","https://openalex.org/W2130479394","https://openalex.org/W2140538197","https://openalex.org/W2158714788","https://openalex.org/W2170747616","https://openalex.org/W2174184943","https://openalex.org/W2409688657","https://openalex.org/W2472103865","https://openalex.org/W2557595285","https://openalex.org/W2558889343","https://openalex.org/W2604763608","https://openalex.org/W2612690371","https://openalex.org/W2753709519","https://openalex.org/W2767670653","https://openalex.org/W2896457183","https://openalex.org/W2900343982","https://openalex.org/W2949342052","https://openalex.org/W2954996726","https://openalex.org/W2957874522","https://openalex.org/W2994678679","https://openalex.org/W3000559469","https://openalex.org/W3005769002","https://openalex.org/W3007077815","https://openalex.org/W3101266482","https://openalex.org/W3121082297","https://openalex.org/W3126876258","https://openalex.org/W3138705992","https://openalex.org/W3146944767","https://openalex.org/W3177500196","https://openalex.org/W3177828909","https://openalex.org/W3186179742","https://openalex.org/W3197696221","https://openalex.org/W4200540728","https://openalex.org/W4205989901","https://openalex.org/W4214530112","https://openalex.org/W4220991280","https://openalex.org/W4225833995","https://openalex.org/W4231059664","https://openalex.org/W4232212680","https://openalex.org/W4236965008","https://openalex.org/W4288089799","https://openalex.org/W4295312788","https://openalex.org/W6714457943","https://openalex.org/W6765474767","https://openalex.org/W6766978945","https://openalex.org/W6769627184","https://openalex.org/W6780226713","https://openalex.org/W6786143203","https://openalex.org/W6798407072","https://openalex.org/W6804988843"],"related_works":["https://openalex.org/W2962906565","https://openalex.org/W2798423868","https://openalex.org/W2883195674","https://openalex.org/W2072736607","https://openalex.org/W4298158270","https://openalex.org/W2043380470","https://openalex.org/W2271496879","https://openalex.org/W3080374445","https://openalex.org/W2964790801","https://openalex.org/W4226172942"],"abstract_inverted_index":{"More":[0],"than":[1,152],"one-third":[2],"of":[3,16,38,57,64,73,87,130,184,199],"the":[4,10,32,62,71,88,104,128,135,161,165,174,181,191],"proteins":[5],"contain":[6],"metal":[7,17,39,93,140],"ions":[8,94],"in":[9,95,158],"Protein":[11],"Data":[12],"Bank.":[13],"Correct":[14],"identification":[15],"ion-binding":[18],"residues":[19,185],"is":[20,123],"important":[21],"for":[22,84,127],"understanding":[23],"protein":[24,51,187],"functions":[25],"and":[26,35,67,100,114,133,156,196],"designing":[27],"novel":[28],"drugs.":[29],"Due":[30],"to":[31,44,61,70,108,117,125,145,179],"small":[33],"size":[34],"high":[36],"versatility":[37],"ions,":[40],"it":[41],"remains":[42],"challenging":[43],"computationally":[45],"predict":[46],"their":[47],"binding":[48,85],"sites":[49,86],"from":[50,186],"sequence.":[52,188],"Existing":[53],"sequence-based":[54,82],"methods":[55,149],"are":[56,177],"low":[58],"accuracy":[59],"due":[60],"lack":[63],"structural":[65,182],"information,":[66],"time-consuming":[68],"owing":[69],"usage":[72],"multi-sequence":[74],"alignment.":[75],"Here,":[76],"we":[77],"propose":[78],"LMetalSite,":[79],"an":[80],"alignment-free":[81],"predictor":[83],"four":[89,166],"most":[90],"frequently":[91],"seen":[92],"BioLiP":[96],"(Zn2+,":[97],"Ca2+,":[98],"Mg2+":[99],"Mn2+).":[101],"LMetalSite":[102,142,200],"leverages":[103],"pretrained":[105],"language":[106],"model":[107],"rapidly":[109],"generate":[110],"informative":[111],"sequence":[112],"representations":[113],"employs":[115],"transformer":[116],"capture":[118,134],"long-range":[119],"dependencies.":[120],"Multi-task":[121],"learning":[122],"adopted":[124],"compensate":[126],"scarcity":[129],"training":[131],"data":[132,192],"intrinsic":[136],"similarities":[137],"between":[138],"different":[139],"ions.":[141],"was":[143],"shown":[144],"surpass":[146],"state-of-the-art":[147],"structure-based":[148],"by":[150],"more":[151],"19.7,":[153],"14.4,":[154],"36.8":[155],"12.6%":[157],"area":[159],"under":[160],"precision":[162],"recall":[163],"on":[164],"independent":[167],"tests,":[168],"respectively.":[169],"Further":[170],"analyses":[171],"indicated":[172],"that":[173],"self-attention":[175],"modules":[176],"effective":[178],"learn":[180],"contexts":[183],"We":[189],"provide":[190],"sets,":[193],"source":[194],"codes":[195],"trained":[197],"models":[198],"at":[201],"https://github.com/biomed-AI/LMetalSite.":[202]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":24},{"year":2024,"cited_by_count":23},{"year":2023,"cited_by_count":12}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
