{"id":"https://openalex.org/W4411144225","doi":"https://doi.org/10.1109/tcbbio.2025.3577565","title":"Enhancing Antimicrobial Peptide Function Prediction via Knowledge Transfer on Protein Language Models","display_name":"Enhancing Antimicrobial Peptide Function Prediction via Knowledge Transfer on Protein Language Models","publication_year":2025,"publication_date":"2025-06-09","ids":{"openalex":"https://openalex.org/W4411144225","doi":"https://doi.org/10.1109/tcbbio.2025.3577565","pmid":"https://pubmed.ncbi.nlm.nih.gov/40811264"},"language":"en","primary_location":{"id":"doi:10.1109/tcbbio.2025.3577565","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbbio.2025.3577565","pdf_url":null,"source":{"id":"https://openalex.org/S5407042751","display_name":"IEEE Transactions on Computational Biology and Bioinformatics","issn_l":"2998-4165","issn":["2998-4165"],"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Computational Biology and Bioinformatics","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":null,"display_name":"Xiao Liang","orcid":"https://orcid.org/0009-0006-1140-4280"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiao Liang","raw_affiliation_strings":["School of Computer Science and Engineering, Central South University, Changsha, China"],"raw_orcid":"https://orcid.org/0009-0006-1140-4280","affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University, Changsha, China","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061114972","display_name":"Haochen Zhao","orcid":"https://orcid.org/0000-0001-8794-3148"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Haochen Zhao","raw_affiliation_strings":["School of Computer Science and Engineering, Central South University, Changsha, China"],"raw_orcid":"https://orcid.org/0000-0001-8794-3148","affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University, Changsha, China","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100438360","display_name":"Jianxin Wang","orcid":"https://orcid.org/0000-0003-1516-0480"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jianxin Wang","raw_affiliation_strings":["School of Computer Science and Engineering, Central South University, Changsha, China"],"raw_orcid":"https://orcid.org/0000-0003-1516-0480","affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University, Changsha, China","institution_ids":["https://openalex.org/I139660479"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I139660479"],"apc_list":null,"apc_paid":null,"fwci":0.4287,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.59302438,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":97},"biblio":{"volume":"22","issue":"6","first_page":"2410","last_page":"2419"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9969000220298767,"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":0.9969000220298767,"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/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.9891999959945679,"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/T13326","display_name":"Biochemical and Structural Characterization","score":0.9648000001907349,"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/antimicrobial","display_name":"Antimicrobial","score":0.6391956210136414},{"id":"https://openalex.org/keywords/peptide","display_name":"Peptide","score":0.5578495264053345},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.4765539765357971},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.45352017879486084},{"id":"https://openalex.org/keywords/antimicrobial-peptides","display_name":"Antimicrobial peptides","score":0.41105616092681885},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3727288246154785},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.33633363246917725},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.2413977086544037},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.23628243803977966},{"id":"https://openalex.org/keywords/cell-biology","display_name":"Cell biology","score":0.16454792022705078},{"id":"https://openalex.org/keywords/organic-chemistry","display_name":"Organic chemistry","score":0.054978907108306885}],"concepts":[{"id":"https://openalex.org/C4937899","wikidata":"https://www.wikidata.org/wiki/Q68541106","display_name":"Antimicrobial","level":2,"score":0.6391956210136414},{"id":"https://openalex.org/C2779281246","wikidata":"https://www.wikidata.org/wiki/Q172847","display_name":"Peptide","level":2,"score":0.5578495264053345},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.4765539765357971},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.45352017879486084},{"id":"https://openalex.org/C540938839","wikidata":"https://www.wikidata.org/wiki/Q1201508","display_name":"Antimicrobial peptides","level":3,"score":0.41105616092681885},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3727288246154785},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.33633363246917725},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.2413977086544037},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.23628243803977966},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.16454792022705078},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.054978907108306885}],"mesh":[{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000089882","descriptor_name":"Antimicrobial Peptides","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D000089882","descriptor_name":"Antimicrobial Peptides","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D000089882","descriptor_name":"Antimicrobial Peptides","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D000089882","descriptor_name":"Antimicrobial Peptides","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":true},{"descriptor_ui":"D000089882","descriptor_name":"Antimicrobial Peptides","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":true},{"descriptor_ui":"D000089882","descriptor_name":"Antimicrobial Peptides","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":true},{"descriptor_ui":"D000089882","descriptor_name":"Antimicrobial Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D000089882","descriptor_name":"Antimicrobial Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D000089882","descriptor_name":"Antimicrobial Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1109/tcbbio.2025.3577565","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbbio.2025.3577565","pdf_url":null,"source":{"id":"https://openalex.org/S5407042751","display_name":"IEEE Transactions on Computational Biology and Bioinformatics","issn_l":"2998-4165","issn":["2998-4165"],"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},{"id":"pmid:40811264","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40811264","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":"IEEE transactions on computational biology and bioinformatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1289362119","display_name":null,"funder_award_id":"62472202","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3324760237","display_name":null,"funder_award_id":"62272309","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G4785461891","display_name":null,"funder_award_id":"U22A2041","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"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":37,"referenced_works":["https://openalex.org/W1998064689","https://openalex.org/W2004682883","https://openalex.org/W2008056655","https://openalex.org/W2054602599","https://openalex.org/W2059764020","https://openalex.org/W2064675550","https://openalex.org/W2088252378","https://openalex.org/W2097099115","https://openalex.org/W2112796928","https://openalex.org/W2133603290","https://openalex.org/W2145957695","https://openalex.org/W2766842911","https://openalex.org/W2791848964","https://openalex.org/W2937346329","https://openalex.org/W2953705189","https://openalex.org/W2980789587","https://openalex.org/W2984592028","https://openalex.org/W3010223921","https://openalex.org/W3040996852","https://openalex.org/W3139686515","https://openalex.org/W3164698295","https://openalex.org/W3175029591","https://openalex.org/W3177500196","https://openalex.org/W4214618924","https://openalex.org/W4308370073","https://openalex.org/W4310641985","https://openalex.org/W4322718303","https://openalex.org/W4327550249","https://openalex.org/W4362657509","https://openalex.org/W4382198814","https://openalex.org/W4385245566","https://openalex.org/W4389450648","https://openalex.org/W4392571650","https://openalex.org/W4400762160","https://openalex.org/W4401966068","https://openalex.org/W4402949285","https://openalex.org/W4404636578"],"related_works":["https://openalex.org/W2358368915","https://openalex.org/W2380741856","https://openalex.org/W2027352683","https://openalex.org/W1973192249","https://openalex.org/W2354039930","https://openalex.org/W4375855538","https://openalex.org/W4409722213","https://openalex.org/W3087020980","https://openalex.org/W2107525095","https://openalex.org/W4211241221"],"abstract_inverted_index":{"The":[0,145],"excessive":[1],"use":[2],"of":[3,11,18,77,126,133],"antibiotics":[4],"has":[5],"contributed":[6],"to":[7,54,70,122],"the":[8,16,124,131],"growing":[9],"resistance":[10],"various":[12],"microbial":[13],"pathogens,":[14],"prompting":[15],"exploration":[17],"alternatives":[19],"such":[20],"as":[21,169],"antimicrobial":[22,91,96,128,174],"peptides":[23,92],"(AMPs).":[24],"However,":[25],"wet-lab":[26],"experimental":[27,146],"methods":[28],"for":[29,51,89,173],"AMP":[30,52,119],"identification":[31],"are":[32],"not":[33],"only":[34],"time-consuming":[35],"but":[36],"also":[37],"resource-intensive.":[38],"Machine":[39],"learning":[40,44,100],"(ML)":[41],"and":[42,93,101],"deep":[43],"(DL)":[45],"techniques":[46,103],"have":[47,64],"been":[48],"increasingly":[49],"employed":[50],"classification":[53,120],"overcome":[55],"these":[56,82],"limitations.":[57],"Recently,":[58],"pre-trained":[59,106],"protein":[60,107],"language":[61,108],"models":[62],"(pLMs)":[63],"emerged,":[65],"demonstrating":[66],"their":[67,94],"exceptional":[68],"ability":[69],"represent":[71],"biological":[72],"sequences":[73],"in":[74],"a":[75,87],"variety":[76],"prediction":[78,125,143],"tasks.":[79,144],"Building":[80],"on":[81,105,141,155],"advancements,":[83],"we":[84],"present":[85],"KT-AMPpred,":[86],"method":[88],"predicting":[90],"specific":[95],"properties":[97],"using":[98],"transfer":[99,111],"fine-tuning":[102,132],"based":[104],"models.":[109],"Utilizing":[110],"learning,":[112],"KT-AMPpred":[113,136,150],"effectively":[114],"integrates":[115],"knowledge":[116],"from":[117],"prior":[118],"tasks":[121],"improve":[123],"distinct":[127],"properties.":[129],"Additionally,":[130],"pLM":[134],"within":[135],"further":[137],"enhances":[138],"its":[139,162],"performance":[140],"downstream":[142],"outcomes":[147],"reveal":[148],"that":[149],"exceeds":[151],"current":[152],"leading":[153],"approaches":[154],"benchmark":[156],"datasets,":[157],"with":[158],"visual":[159],"analysis":[160],"confirming":[161],"robust":[163],"feature":[164],"extraction":[165],"capabilities,":[166],"establishing":[167],"it":[168],"an":[170],"effective":[171],"tool":[172],"peptide":[175],"prediction.":[176]},"counts_by_year":[{"year":2026,"cited_by_count":1}],"updated_date":"2026-07-18T07:39:51.176621","created_date":"2025-10-10T00:00:00"}
