{"id":"https://openalex.org/W4415046037","doi":"https://doi.org/10.1093/bib/bbaf536","title":"Data-efficient protein mutational effect prediction with weak supervision by molecular simulation and protein language models","display_name":"Data-efficient protein mutational effect prediction with weak supervision by molecular simulation and protein language models","publication_year":2025,"publication_date":"2025-08-31","ids":{"openalex":"https://openalex.org/W4415046037","doi":"https://doi.org/10.1093/bib/bbaf536","pmid":"https://pubmed.ncbi.nlm.nih.gov/41071611"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbaf536","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf536","pdf_url":"https://academic.oup.com/bib/article-pdf/26/5/bbaf536/64613011/bbaf536.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/26/5/bbaf536/64613011/bbaf536.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5081052659","display_name":"Teppei Deguchi","orcid":"https://orcid.org/0009-0001-6340-3750"},"institutions":[{"id":"https://openalex.org/I73613424","display_name":"National Institute of Advanced Industrial Science and Technology","ror":"https://ror.org/01703db54","country_code":"JP","type":"government","lineage":["https://openalex.org/I73613424"]},{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Teppei Deguchi","raw_affiliation_strings":["Artificial Intelligence Research Center, National Institute of Advanced Industrial Science and Technology (AIST) , 2-4-7 Aomi, Koto-ku, Tokyo 135-0064 ,","Graduate School of Frontier Sciences, The University of Tokyo , 5-1-5, Kashiwanoha, Kashiwa, Chiba 277-0882 ,"],"raw_orcid":"https://orcid.org/0009-0001-6340-3750","affiliations":[{"raw_affiliation_string":"Artificial Intelligence Research Center, National Institute of Advanced Industrial Science and Technology (AIST) , 2-4-7 Aomi, Koto-ku, Tokyo 135-0064 ,","institution_ids":["https://openalex.org/I73613424"]},{"raw_affiliation_string":"Graduate School of Frontier Sciences, The University of Tokyo , 5-1-5, Kashiwanoha, Kashiwa, Chiba 277-0882 ,","institution_ids":["https://openalex.org/I74801974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5018419350","display_name":"Nur Syatila Ab Ghani","orcid":"https://orcid.org/0000-0003-0718-6904"},"institutions":[{"id":"https://openalex.org/I64189623","display_name":"Kitasato University","ror":"https://ror.org/00f2txz25","country_code":"JP","type":"education","lineage":["https://openalex.org/I64189623"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Nur Syatila Ab Ghani","raw_affiliation_strings":["School of Frontier Engineering, Kitasato University , 1-15-1 Kitazato, Minami-ku, Sagamihara, Kanagawa 252-0373 ,"],"raw_orcid":"https://orcid.org/0000-0003-0718-6904","affiliations":[{"raw_affiliation_string":"School of Frontier Engineering, Kitasato University , 1-15-1 Kitazato, Minami-ku, Sagamihara, Kanagawa 252-0373 ,","institution_ids":["https://openalex.org/I64189623"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013303440","display_name":"Yoichi Kurumida","orcid":"https://orcid.org/0000-0003-2696-154X"},"institutions":[{"id":"https://openalex.org/I64189623","display_name":"Kitasato University","ror":"https://ror.org/00f2txz25","country_code":"JP","type":"education","lineage":["https://openalex.org/I64189623"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Yoichi Kurumida","raw_affiliation_strings":["School of Frontier Engineering, Kitasato University , 1-15-1 Kitazato, Minami-ku, Sagamihara, Kanagawa 252-0373 ,"],"raw_orcid":"https://orcid.org/0000-0003-2696-154X","affiliations":[{"raw_affiliation_string":"School of Frontier Engineering, Kitasato University , 1-15-1 Kitazato, Minami-ku, Sagamihara, Kanagawa 252-0373 ,","institution_ids":["https://openalex.org/I64189623"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014392196","display_name":"Shinji Iida","orcid":"https://orcid.org/0000-0003-2094-495X"},"institutions":[{"id":"https://openalex.org/I64189623","display_name":"Kitasato University","ror":"https://ror.org/00f2txz25","country_code":"JP","type":"education","lineage":["https://openalex.org/I64189623"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Shinji Iida","raw_affiliation_strings":["School of Frontier Engineering, Kitasato University , 1-15-1 Kitazato, Minami-ku, Sagamihara, Kanagawa 252-0373 ,"],"raw_orcid":"https://orcid.org/0000-0003-2094-495X","affiliations":[{"raw_affiliation_string":"School of Frontier Engineering, Kitasato University , 1-15-1 Kitazato, Minami-ku, Sagamihara, Kanagawa 252-0373 ,","institution_ids":["https://openalex.org/I64189623"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083294123","display_name":"Kaito Kobayashi","orcid":"https://orcid.org/0000-0002-2662-2452"},"institutions":[{"id":"https://openalex.org/I73613424","display_name":"National Institute of Advanced Industrial Science and Technology","ror":"https://ror.org/01703db54","country_code":"JP","type":"government","lineage":["https://openalex.org/I73613424"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Kaito Kobayashi","raw_affiliation_strings":["Artificial Intelligence Research Center, National Institute of Advanced Industrial Science and Technology (AIST) , 2-4-7 Aomi, Koto-ku, Tokyo 135-0064 ,"],"raw_orcid":"https://orcid.org/0000-0002-2662-2452","affiliations":[{"raw_affiliation_string":"Artificial Intelligence Research Center, National Institute of Advanced Industrial Science and Technology (AIST) , 2-4-7 Aomi, Koto-ku, Tokyo 135-0064 ,","institution_ids":["https://openalex.org/I73613424"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5076300103","display_name":"Yutaka Sait\u014d","orcid":"https://orcid.org/0000-0002-4853-0153"},"institutions":[{"id":"https://openalex.org/I64189623","display_name":"Kitasato University","ror":"https://ror.org/00f2txz25","country_code":"JP","type":"education","lineage":["https://openalex.org/I64189623"]},{"id":"https://openalex.org/I73613424","display_name":"National Institute of Advanced Industrial Science and Technology","ror":"https://ror.org/01703db54","country_code":"JP","type":"government","lineage":["https://openalex.org/I73613424"]},{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Yutaka Saito","raw_affiliation_strings":["Artificial Intelligence Research Center, National Institute of Advanced Industrial Science and Technology (AIST) , 2-4-7 Aomi, Koto-ku, Tokyo 135-0064 ,","Graduate School of Frontier Sciences, The University of Tokyo , 5-1-5, Kashiwanoha, Kashiwa, Chiba 277-0882 ,","School of Frontier Engineering, Kitasato University , 1-15-1 Kitazato, Minami-ku, Sagamihara, Kanagawa 252-0373 ,"],"raw_orcid":"https://orcid.org/0000-0002-4853-0153","affiliations":[{"raw_affiliation_string":"Artificial Intelligence Research Center, National Institute of Advanced Industrial Science and Technology (AIST) , 2-4-7 Aomi, Koto-ku, Tokyo 135-0064 ,","institution_ids":["https://openalex.org/I73613424"]},{"raw_affiliation_string":"Graduate School of Frontier Sciences, The University of Tokyo , 5-1-5, Kashiwanoha, Kashiwa, Chiba 277-0882 ,","institution_ids":["https://openalex.org/I74801974"]},{"raw_affiliation_string":"School of Frontier Engineering, Kitasato University , 1-15-1 Kitazato, Minami-ku, Sagamihara, Kanagawa 252-0373 ,","institution_ids":["https://openalex.org/I64189623"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5081052659"],"corresponding_institution_ids":["https://openalex.org/I73613424","https://openalex.org/I74801974"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":1.3723,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.8322511,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":98,"max":99},"biblio":{"volume":"26","issue":"5","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9952999949455261,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9952999949455261,"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":0.987500011920929,"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/T10260","display_name":"Software Engineering Research","score":0.9703999757766724,"subfield":{"id":"https://openalex.org/subfields/1710","display_name":"Information Systems"},"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/benchmark","display_name":"Benchmark (surveying)","score":0.7297999858856201},{"id":"https://openalex.org/keywords/training-set","display_name":"Training set","score":0.6481000185012817},{"id":"https://openalex.org/keywords/experimental-data","display_name":"Experimental data","score":0.42750000953674316},{"id":"https://openalex.org/keywords/training","display_name":"Training (meteorology)","score":0.41589999198913574},{"id":"https://openalex.org/keywords/protein-engineering","display_name":"Protein engineering","score":0.38019999861717224},{"id":"https://openalex.org/keywords/pathogenicity","display_name":"Pathogenicity","score":0.3788999915122986},{"id":"https://openalex.org/keywords/computational-model","display_name":"Computational model","score":0.33889999985694885},{"id":"https://openalex.org/keywords/mutation","display_name":"Mutation","score":0.3343000113964081}],"concepts":[{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.7297999858856201},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6992999911308289},{"id":"https://openalex.org/C51632099","wikidata":"https://www.wikidata.org/wiki/Q3985153","display_name":"Training set","level":2,"score":0.6481000185012817},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.579200029373169},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4803999960422516},{"id":"https://openalex.org/C55037315","wikidata":"https://www.wikidata.org/wiki/Q5421151","display_name":"Experimental data","level":2,"score":0.42750000953674316},{"id":"https://openalex.org/C2777211547","wikidata":"https://www.wikidata.org/wiki/Q17141490","display_name":"Training (meteorology)","level":2,"score":0.41589999198913574},{"id":"https://openalex.org/C147816474","wikidata":"https://www.wikidata.org/wiki/Q169525","display_name":"Protein engineering","level":3,"score":0.38019999861717224},{"id":"https://openalex.org/C64502627","wikidata":"https://www.wikidata.org/wiki/Q170065","display_name":"Pathogenicity","level":2,"score":0.3788999915122986},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.35589998960494995},{"id":"https://openalex.org/C66024118","wikidata":"https://www.wikidata.org/wiki/Q1122506","display_name":"Computational model","level":2,"score":0.33889999985694885},{"id":"https://openalex.org/C501734568","wikidata":"https://www.wikidata.org/wiki/Q42918","display_name":"Mutation","level":3,"score":0.3343000113964081},{"id":"https://openalex.org/C18051474","wikidata":"https://www.wikidata.org/wiki/Q899656","display_name":"Protein structure prediction","level":3,"score":0.32269999384880066},{"id":"https://openalex.org/C11804247","wikidata":"https://www.wikidata.org/wiki/Q896177","display_name":"Protein\u2013protein interaction","level":2,"score":0.29580000042915344},{"id":"https://openalex.org/C67186912","wikidata":"https://www.wikidata.org/wiki/Q367664","display_name":"Data modeling","level":2,"score":0.2921999990940094},{"id":"https://openalex.org/C201797286","wikidata":"https://www.wikidata.org/wiki/Q4914986","display_name":"Biological data","level":2,"score":0.2849999964237213},{"id":"https://openalex.org/C2986374874","wikidata":"https://www.wikidata.org/wiki/Q8054","display_name":"Protein function","level":3,"score":0.27869999408721924},{"id":"https://openalex.org/C2776145971","wikidata":"https://www.wikidata.org/wiki/Q30673951","display_name":"Labeled data","level":2,"score":0.27469998598098755},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.26570001244544983},{"id":"https://openalex.org/C109747225","wikidata":"https://www.wikidata.org/wiki/Q815758","display_name":"Scarcity","level":2,"score":0.26339998841285706},{"id":"https://openalex.org/C45804977","wikidata":"https://www.wikidata.org/wiki/Q7239673","display_name":"Predictive modelling","level":2,"score":0.26170000433921814},{"id":"https://openalex.org/C9652623","wikidata":"https://www.wikidata.org/wiki/Q190109","display_name":"Field (mathematics)","level":2,"score":0.26010000705718994}],"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":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"D011506","descriptor_name":"Proteins","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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbaf536","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf536","pdf_url":"https://academic.oup.com/bib/article-pdf/26/5/bbaf536/64613011/bbaf536.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:41071611","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/41071611","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:europepmc.org:11320913","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12513171","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbaf536","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf536","pdf_url":"https://academic.oup.com/bib/article-pdf/26/5/bbaf536/64613011/bbaf536.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":[],"awards":[{"id":"https://openalex.org/G1305970412","display_name":null,"funder_award_id":"22H03691","funder_id":"https://openalex.org/F4320320212","funder_display_name":"Japan Society for the Promotion of Science London"},{"id":"https://openalex.org/G1774117831","display_name":null,"funder_award_id":"JPNP14004","funder_id":"https://openalex.org/F4320321034","funder_display_name":"New Energy and Industrial Technology Development Organization"},{"id":"https://openalex.org/G3499183929","display_name":null,"funder_award_id":"22H03691","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G3752857035","display_name":null,"funder_award_id":"JPMJSP2108","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G5049378630","display_name":null,"funder_award_id":"JPNP14004","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G7444308305","display_name":null,"funder_award_id":"JP19ak0101122","funder_id":"https://openalex.org/F4320311405","funder_display_name":"Japan Agency for Medical Research and Development"}],"funders":[{"id":"https://openalex.org/F4320311405","display_name":"Japan Agency for Medical Research and Development","ror":"https://ror.org/004rtk039"},{"id":"https://openalex.org/F4320311508","display_name":"National Institute of Advanced Industrial Science and Technology","ror":"https://ror.org/01703db54"},{"id":"https://openalex.org/F4320313217","display_name":"Japan Association for Chemical Innovation","ror":null},{"id":"https://openalex.org/F4320320212","display_name":"Japan Society for the Promotion of Science London","ror":"https://ror.org/02m7axw05"},{"id":"https://openalex.org/F4320321034","display_name":"New Energy and Industrial Technology Development Organization","ror":"https://ror.org/0055k7a87"},{"id":"https://openalex.org/F4320334764","display_name":"Japan Society for the Promotion of Science","ror":"https://ror.org/00hhkn466"},{"id":"https://openalex.org/F4320335112","display_name":"Cybermedia Center, Osaka University","ror":null},{"id":"https://openalex.org/F4320338065","display_name":"Institute of Genetics","ror":"https://ror.org/03gwhmn95"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4415046037.pdf","grobid_xml":"https://content.openalex.org/works/W4415046037.grobid-xml"},"referenced_works_count":56,"referenced_works":["https://openalex.org/W255996521","https://openalex.org/W1964357740","https://openalex.org/W1971166275","https://openalex.org/W1971769921","https://openalex.org/W1975206909","https://openalex.org/W1981451479","https://openalex.org/W1999334142","https://openalex.org/W1999983473","https://openalex.org/W2023490488","https://openalex.org/W2024213882","https://openalex.org/W2051627306","https://openalex.org/W2065989745","https://openalex.org/W2073435845","https://openalex.org/W2078047353","https://openalex.org/W2086565769","https://openalex.org/W2092810439","https://openalex.org/W2095719702","https://openalex.org/W2100076566","https://openalex.org/W2115367108","https://openalex.org/W2123742735","https://openalex.org/W2126559590","https://openalex.org/W2130479394","https://openalex.org/W2153457180","https://openalex.org/W2158230102","https://openalex.org/W2162255907","https://openalex.org/W2201713963","https://openalex.org/W2508518100","https://openalex.org/W2780523853","https://openalex.org/W2804446681","https://openalex.org/W2885204620","https://openalex.org/W2911964244","https://openalex.org/W2956569764","https://openalex.org/W2964307930","https://openalex.org/W2995106228","https://openalex.org/W2997591727","https://openalex.org/W3131852822","https://openalex.org/W3144239152","https://openalex.org/W3177828909","https://openalex.org/W3179485843","https://openalex.org/W3183354255","https://openalex.org/W4211196614","https://openalex.org/W4223602425","https://openalex.org/W4224317046","https://openalex.org/W4327550249","https://openalex.org/W4366083897","https://openalex.org/W4367399594","https://openalex.org/W4386861232","https://openalex.org/W4387601539","https://openalex.org/W4387839235","https://openalex.org/W4389916165","https://openalex.org/W4392239232","https://openalex.org/W4394914317","https://openalex.org/W4401900858","https://openalex.org/W4403770916","https://openalex.org/W4406087610","https://openalex.org/W4406292098"],"related_works":[],"abstract_inverted_index":{"Machine":[0],"learning-based":[1],"protein":[2,10,71,119,154],"mutational":[3,50],"effect":[4],"prediction":[5,68,135,158],"is":[6],"widely":[7],"used":[8],"in":[9,159],"engineering":[11,155],"and":[12,93,125,156],"pathogenicity":[13,157],"prediction,":[14],"but":[15],"training":[16,80,85,97,103,112,140],"data":[17,34,59,81,98,113,141,161],"scarcity":[18],"remains":[19],"a":[20,57],"major":[21],"challenge":[22],"due":[23],"to":[24,48,82,117,152],"high":[25],"costs":[26],"of":[27,95,110,149],"experimental":[28,84,102,139],"measurements.":[29],"A":[30],"previous":[31],"study":[32],"proposed":[33],"augmentation":[35,60],"using":[36],"computational":[37,75],"estimates":[38,76],"by":[39,70],"molecular":[40,64],"simulation.":[41],"However,":[42],"this":[43],"approach":[44,151],"has":[45],"been":[46],"limited":[47],"predicting":[49],"effects":[51],"on":[52,100],"thermostability.":[53],"Here,":[54],"we":[55],"present":[56],"new":[58],"method":[61,88,133],"that":[62,131],"combines":[63],"simulation":[65],"with":[66],"zero-shot":[67],"computed":[69],"language":[72],"models.":[73],"These":[74,144],"serve":[77],"as":[78,122],"'weak'":[79],"supplement":[83],"data.":[86,104],"Our":[87],"dynamically":[89],"adjusts":[90],"the":[91,147],"weight":[92],"inclusion":[94],"weak":[96,111],"based":[99],"available":[101],"This":[105],"reduces":[106],"potential":[107],"negative":[108],"impacts":[109],"while":[114],"extending":[115],"applicability":[116],"diverse":[118],"properties":[120],"such":[121],"binding":[123],"affinity":[124],"enzymatic":[126],"activity.":[127],"Benchmark":[128],"tests":[129],"demonstrate":[130],"our":[132,150],"improves":[134],"accuracy":[136],"particularly":[137],"when":[138],"are":[142],"scarce.":[143],"results":[145],"indicate":[146],"capability":[148],"advance":[153],"small":[160],"regimes.":[162]},"counts_by_year":[{"year":2026,"cited_by_count":2}],"updated_date":"2026-05-05T08:41:31.759640","created_date":"2025-10-11T00:00:00"}
