{"id":"https://openalex.org/W4389333191","doi":"https://doi.org/10.1021/acs.jcim.5c03186","title":"Controllable Protein Design by Prefix-Tuning Protein Language Models","display_name":"Controllable Protein Design by Prefix-Tuning Protein Language Models","publication_year":2026,"publication_date":"2026-04-06","ids":{"openalex":"https://openalex.org/W4389333191","doi":"https://doi.org/10.1021/acs.jcim.5c03186","pmid":"https://pubmed.ncbi.nlm.nih.gov/41937661"},"language":"en","primary_location":{"id":"doi:10.1021/acs.jcim.5c03186","is_oa":false,"landing_page_url":"https://doi.org/10.1021/acs.jcim.5c03186","pdf_url":null,"source":{"id":"https://openalex.org/S167262187","display_name":"Journal of Chemical Information and Modeling","issn_l":"1549-9596","issn":["1549-9596","1549-960X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Modeling","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.biorxiv.org/content/biorxiv/early/2023/12/05/2023.12.03.569747.full.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5046799849","display_name":"Jiawei Luo","orcid":"https://orcid.org/0000-0002-2768-6634"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]},{"id":"https://openalex.org/I4390039265","display_name":"PRG S&Tech (South Korea)","ror":"https://ror.org/02sr2ee22","country_code":null,"type":"company","lineage":["https://openalex.org/I4390039265"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jiawei Luo","raw_affiliation_strings":["Harbin Institute of Technology","School of Computer Science and Technology","School of Computer Science and Technology, Harbin Institute of Technology, Shenzhen, Guangdong, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Harbin Institute of Technology","institution_ids":["https://openalex.org/I204983213"]},{"raw_affiliation_string":"School of Computer Science and Technology","institution_ids":["https://openalex.org/I4390039265"]},{"raw_affiliation_string":"School of Computer Science and Technology, Harbin Institute of Technology, Shenzhen, Guangdong, China","institution_ids":["https://openalex.org/I204983213"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102751017","display_name":"Xianliang Liu","orcid":"https://orcid.org/0000-0003-3970-1798"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]},{"id":"https://openalex.org/I4390039265","display_name":"PRG S&Tech (South Korea)","ror":"https://ror.org/02sr2ee22","country_code":null,"type":"company","lineage":["https://openalex.org/I4390039265"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jiahao Li","raw_affiliation_strings":["Harbin Institute of Technology","School of Computer Science and Technology","School of Computer Science and Technology, Harbin Institute of Technology, Shenzhen, Guangdong, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Harbin Institute of Technology","institution_ids":["https://openalex.org/I204983213"]},{"raw_affiliation_string":"School of Computer Science and Technology","institution_ids":["https://openalex.org/I4390039265"]},{"raw_affiliation_string":"School of Computer Science and Technology, Harbin Institute of Technology, Shenzhen, Guangdong, China","institution_ids":["https://openalex.org/I204983213"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100328393","display_name":"Jiahao Li","orcid":"https://orcid.org/0000-0003-4559-0086"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]},{"id":"https://openalex.org/I4390039265","display_name":"PRG S&Tech (South Korea)","ror":"https://ror.org/02sr2ee22","country_code":null,"type":"company","lineage":["https://openalex.org/I4390039265"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xianliang Liu","raw_affiliation_strings":["Harbin Institute of Technology","School of Computer Science and Technology","School of Computer Science and Technology, Harbin Institute of Technology, Shenzhen, Guangdong, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Harbin Institute of Technology","institution_ids":["https://openalex.org/I204983213"]},{"raw_affiliation_string":"School of Computer Science and Technology","institution_ids":["https://openalex.org/I4390039265"]},{"raw_affiliation_string":"School of Computer Science and Technology, Harbin Institute of Technology, Shenzhen, Guangdong, China","institution_ids":["https://openalex.org/I204983213"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100354675","display_name":"Yang Zhang","orcid":"https://orcid.org/0000-0002-3503-5161"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yang Zhang","raw_affiliation_strings":["Harbin Institute of Technology","School of Science"],"raw_orcid":"https://orcid.org/0000-0002-3503-5161","affiliations":[{"raw_affiliation_string":"Harbin Institute of Technology","institution_ids":["https://openalex.org/I204983213"]},{"raw_affiliation_string":"School of Science","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072624830","display_name":"Qingcai Chen","orcid":"https://orcid.org/0000-0001-7450-0073"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]},{"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"]},{"id":"https://openalex.org/I4390039265","display_name":"PRG S&Tech (South Korea)","ror":"https://ror.org/02sr2ee22","country_code":null,"type":"company","lineage":["https://openalex.org/I4390039265"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qingcai Chen","raw_affiliation_strings":["Harbin Institute of Technology","School of Computer Science and Technology","Guangdong Provincial Key Laboratory of Novel Security Intelligence Technologies, Shenzhen, Guangdong, China","PengCheng Laboratory, Shenzhen, Guangdong, China","School of Computer Science and Technology, Harbin Institute of Technology, Shenzhen, Guangdong, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Harbin Institute of Technology","institution_ids":["https://openalex.org/I204983213"]},{"raw_affiliation_string":"School of Computer Science and Technology","institution_ids":["https://openalex.org/I4390039265"]},{"raw_affiliation_string":"Guangdong Provincial Key Laboratory of Novel Security Intelligence Technologies, Shenzhen, Guangdong, China","institution_ids":[]},{"raw_affiliation_string":"PengCheng Laboratory, Shenzhen, Guangdong, China","institution_ids":["https://openalex.org/I4210136793"]},{"raw_affiliation_string":"School of Computer Science and Technology, Harbin Institute of Technology, Shenzhen, Guangdong, China","institution_ids":["https://openalex.org/I204983213"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100365536","display_name":"Junjie Chen","orcid":"https://orcid.org/0000-0002-0483-303X"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]},{"id":"https://openalex.org/I4390039265","display_name":"PRG S&Tech (South Korea)","ror":"https://ror.org/02sr2ee22","country_code":null,"type":"company","lineage":["https://openalex.org/I4390039265"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Junjie Chen","raw_affiliation_strings":["Harbin Institute of Technology","School of Computer Science and Technology","School of Computer Science and Technology, Harbin Institute of Technology, Shenzhen, Guangdong, China"],"raw_orcid":"https://orcid.org/0000-0002-0483-303X","affiliations":[{"raw_affiliation_string":"Harbin Institute of Technology","institution_ids":["https://openalex.org/I204983213"]},{"raw_affiliation_string":"School of Computer Science and Technology","institution_ids":["https://openalex.org/I4390039265"]},{"raw_affiliation_string":"School of Computer Science and Technology, Harbin Institute of Technology, Shenzhen, Guangdong, China","institution_ids":["https://openalex.org/I204983213"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5100365536"],"corresponding_institution_ids":["https://openalex.org/I204983213","https://openalex.org/I4390039265"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":2,"citation_normalized_percentile":{"value":0.0005517,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":95},"biblio":{"volume":"66","issue":"8","first_page":"4932","last_page":"4946"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T13326","display_name":"Biochemical and Structural Characterization","score":0.9993000030517578,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T13326","display_name":"Biochemical and Structural Characterization","score":0.9993000030517578,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10911","display_name":"Chemical Synthesis and Analysis","score":0.9984999895095825,"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/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"}}],"keywords":[{"id":"https://openalex.org/keywords/prefix","display_name":"Prefix","score":0.7301371097564697},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5066693425178528},{"id":"https://openalex.org/keywords/linguistics","display_name":"Linguistics","score":0.14838731288909912}],"concepts":[{"id":"https://openalex.org/C141603448","wikidata":"https://www.wikidata.org/wiki/Q134830","display_name":"Prefix","level":2,"score":0.7301371097564697},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5066693425178528},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.14838731288909912},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"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},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D015195","descriptor_name":"Drug Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015195","descriptor_name":"Drug Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015195","descriptor_name":"Drug Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015195","descriptor_name":"Drug Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015202","descriptor_name":"Protein Engineering","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D015202","descriptor_name":"Protein Engineering","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D015202","descriptor_name":"Protein Engineering","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D015202","descriptor_name":"Protein Engineering","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1021/acs.jcim.5c03186","is_oa":false,"landing_page_url":"https://doi.org/10.1021/acs.jcim.5c03186","pdf_url":null,"source":{"id":"https://openalex.org/S167262187","display_name":"Journal of Chemical Information and Modeling","issn_l":"1549-9596","issn":["1549-9596","1549-960X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Modeling","raw_type":"journal-article"},{"id":"doi:10.1101/2023.12.03.569747","is_oa":true,"landing_page_url":"https://doi.org/10.1101/2023.12.03.569747","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2023/12/05/2023.12.03.569747.full.pdf","source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},{"id":"pmid:41937661","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/41937661","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of chemical information and modeling","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:13127579","is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC13127579/","pdf_url":null,"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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"J Chem Inf Model","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1101/2023.12.03.569747","is_oa":true,"landing_page_url":"https://doi.org/10.1101/2023.12.03.569747","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2023/12/05/2023.12.03.569747.full.pdf","source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/3","score":0.4300000071525574,"display_name":"Good health and well-being"}],"awards":[{"id":"https://openalex.org/G2539582447","display_name":null,"funder_award_id":"JCYJ20230807094318038","funder_id":"https://openalex.org/F4320336569","funder_display_name":"Shenzhen Science and Technology Innovation Program"},{"id":"https://openalex.org/G2761649230","display_name":null,"funder_award_id":"62102118","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3309074268","display_name":null,"funder_award_id":"2010005","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3515780356","display_name":null,"funder_award_id":"KQTD20240729102154066","funder_id":"https://openalex.org/F4320336569","funder_display_name":"Shenzhen Science and Technology Innovation Program"},{"id":"https://openalex.org/G4608977736","display_name":null,"funder_award_id":"2021KQNCX274","funder_id":"https://openalex.org/F4320326279","funder_display_name":"Department of Education of Guangdong Province"},{"id":"https://openalex.org/G5759030989","display_name":null,"funder_award_id":"2025A1515010185","funder_id":"https://openalex.org/F4320337111","funder_display_name":"Basic and Applied Basic Research Foundation of Guangdong Province"},{"id":"https://openalex.org/G6430788580","display_name":null,"funder_award_id":"62276075","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6972841733","display_name":null,"funder_award_id":"KCXFZ20230731093001002","funder_id":"https://openalex.org/F4320336569","funder_display_name":"Shenzhen Science and Technology Innovation Program"},{"id":"https://openalex.org/G7141556541","display_name":null,"funder_award_id":"61872113","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G8633401498","display_name":null,"funder_award_id":"62573164","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/F4320326279","display_name":"Department of Education of Guangdong Province","ror":null},{"id":"https://openalex.org/F4320336569","display_name":"Shenzhen Science and Technology Innovation Program","ror":null},{"id":"https://openalex.org/F4320337111","display_name":"Basic and Applied Basic Research Foundation of Guangdong Province","ror":null}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4389333191.pdf"},"referenced_works_count":48,"referenced_works":["https://openalex.org/W1546896179","https://openalex.org/W1971024387","https://openalex.org/W2033969841","https://openalex.org/W2035755292","https://openalex.org/W2040299410","https://openalex.org/W2074231493","https://openalex.org/W2097099115","https://openalex.org/W2102245393","https://openalex.org/W2118265845","https://openalex.org/W2121627241","https://openalex.org/W2140679639","https://openalex.org/W2151581834","https://openalex.org/W2161072217","https://openalex.org/W2201713963","https://openalex.org/W2611281850","https://openalex.org/W2784920021","https://openalex.org/W2896869870","https://openalex.org/W2898933261","https://openalex.org/W2908510526","https://openalex.org/W2944245644","https://openalex.org/W2973049837","https://openalex.org/W3005012312","https://openalex.org/W3048086963","https://openalex.org/W3097405028","https://openalex.org/W3119438769","https://openalex.org/W3126960149","https://openalex.org/W3137064251","https://openalex.org/W3152956381","https://openalex.org/W3168867926","https://openalex.org/W3205270560","https://openalex.org/W3205925781","https://openalex.org/W4220765272","https://openalex.org/W4280534475","https://openalex.org/W4288066876","https://openalex.org/W4312197262","https://openalex.org/W4312198087","https://openalex.org/W4320342754","https://openalex.org/W4320502957","https://openalex.org/W4324344300","https://openalex.org/W4327550249","https://openalex.org/W4360603156","https://openalex.org/W4387432256","https://openalex.org/W4387800062","https://openalex.org/W4388024559","https://openalex.org/W4389767566","https://openalex.org/W4392222550","https://openalex.org/W4393739747","https://openalex.org/W4398777692"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W2142481367","https://openalex.org/W3196321793","https://openalex.org/W3080705045","https://openalex.org/W2385527937","https://openalex.org/W2005880840","https://openalex.org/W2507465767","https://openalex.org/W4385305499"],"abstract_inverted_index":{"Abstract":[0],"The":[1,129,244],"design":[2,91,142,151,215],"of":[3,30,131,175,198,204,214],"novel":[4],"proteins":[5,205],"with":[6,189,206,233],"tailored":[7,108],"functionalities,":[8],"particularly":[9,186],"in":[10,34,48,187,236],"drug":[11,237],"discovery":[12,238],"and":[13,117,148,183,221,239,242,246],"vaccine":[14],"development,":[15],"presents":[16],"a":[17,86,114,172,225],"transformative":[18],"approach":[19],"to":[20,59,70,96,109,122],"addressing":[21],"pressing":[22],"biomedical":[23],"challenges.":[24],"Inspired":[25],"by":[26,170],"the":[27,64,167,195,202,212],"remarkable":[28],"success":[29],"pre-trained":[31,168],"language":[32,36,40,61],"models":[33,41,245],"natural":[35],"processing":[37],"(NLP),":[38],"protein":[39,50,90,111,127,140,149,231],"(ProtLMs)":[42],"have":[43],"emerged":[44],"as":[45,100],"powerful":[46],"tools":[47],"advancing":[49],"science.":[51],"While":[52],"NLP":[53],"leverages":[54],"flexible":[55],"text-based":[56],"control":[57,101,125],"tags":[58],"prompt":[60],"model":[62],"generation,":[63],"restricted":[65],"amino":[66],"acid":[67],"space":[68],"(limited":[69],"20":[71],"residues)":[72],"imposes":[73],"inherent":[74],"constraints":[75],"on":[76],"achieving":[77],"analogous":[78],"controllability.":[79],"In":[80],"this":[81],"study,":[82],"we":[83],"propose":[84],"PrefixProt,":[85],"framework":[87,227],"for":[88,228],"controllable":[89],"that":[92,161],"employs":[93],"prefix":[94,162],"tuning":[95],"learn":[97],"virtual":[98,104,163,199],"tokens":[99,105,164,200],"tags.":[102],"These":[103],"are":[106,248],"adaptively":[107],"diverse":[110],"properties":[112],"through":[113,135],"data-driven":[115],"manner":[116],"can":[118],"be":[119],"combinatorially":[120],"integrated":[121],"enable":[123],"multi-objective":[124],"over":[126],"generation.":[128],"effectiveness":[130],"PrefixProt":[132,223],"was":[133],"validated":[134],"extensive":[136],"experiments":[137],"encompassing":[138],"both":[139],"structure":[141],"(e.g.":[143,152],"alpha-helix":[144],"or":[145,154],"beta-sheet":[146],"topologies)":[147],"function":[150],"antimicrobial":[153],"anticancer":[155],"peptide":[156],"activities).":[157],"Benchmark":[158],"results":[159],"demonstrate":[160],"efficiently":[165],"guide":[166],"ProtLM":[169],"optimizing":[171],"smaller":[173],"number":[174],"trainable":[176],"parameters,":[177],"out-performing":[178],"other":[179],"parameter-efficient":[180],"fine-tuning":[181],"methods":[182],"text-guided":[184],"ProtLMs,":[185],"scenarios":[188],"limited":[190],"data":[191],"availability.":[192],"More":[193],"importantly,":[194],"compositional":[196],"flexibility":[197],"facilitates":[201],"generation":[203],"multiple":[207],"target":[208],"properties,":[209],"substantially":[210],"expanding":[211],"scope":[213],"possibilities.":[216],"By":[217],"harmonizing":[218],"controllability,":[219],"efficiency":[220],"generalizability,":[222],"establishes":[224],"robust":[226],"de":[229],"novo":[230],"design,":[232],"promising":[234],"applications":[235],"biomedicine.":[240],"Availability":[241],"implementation":[243],"code":[247],"available":[249],"at:":[250],"https://github.com/chen-bioinfo/PrefixProt":[251]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1}],"updated_date":"2026-07-19T07:52:34.831488","created_date":"2025-10-10T00:00:00"}
