{"id":"https://openalex.org/W4410020031","doi":"https://doi.org/10.1093/bib/bbaf171","title":"PSTP: accurate residue-level phase separation prediction using protein conformational and language model embeddings","display_name":"PSTP: accurate residue-level phase separation prediction using protein conformational and language model embeddings","publication_year":2025,"publication_date":"2025-04-28","ids":{"openalex":"https://openalex.org/W4410020031","doi":"https://doi.org/10.1093/bib/bbaf171","pmid":"https://pubmed.ncbi.nlm.nih.gov/40315433"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbaf171","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf171","pdf_url":"https://academic.oup.com/bib/article-pdf/26/3/bbaf171/63046455/bbaf171.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","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/26/3/bbaf171/63046455/bbaf171.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5089539598","display_name":"Mofan Feng","orcid":null},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]},{"id":"https://openalex.org/I4210159420","display_name":"Shanghai Children's Hospital","ror":"https://ror.org/05pea1m70","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210159420"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Mofan Feng","raw_affiliation_strings":["Bio-X Institutes, Key Laboratory for the Genetics of Developmental and Neuropsychiatric Disorders, Shanghai Jiao Tong University , No. 1954 Huashan Road, Xuhui District, Shanghai 200030 ,","Shanghai Institute of Medical Genetics, Shanghai Children\u2019s Hospital, Shanghai Jiao Tong University School of Medicine , No. 24 Lane 1400 West Beijing Road, Jing\u2019an District, Shanghai 200040 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bio-X Institutes, Key Laboratory for the Genetics of Developmental and Neuropsychiatric Disorders, Shanghai Jiao Tong University , No. 1954 Huashan Road, Xuhui District, Shanghai 200030 ,","institution_ids":["https://openalex.org/I183067930"]},{"raw_affiliation_string":"Shanghai Institute of Medical Genetics, Shanghai Children\u2019s Hospital, Shanghai Jiao Tong University School of Medicine , No. 24 Lane 1400 West Beijing Road, Jing\u2019an District, Shanghai 200040 ,","institution_ids":["https://openalex.org/I4210159420","https://openalex.org/I183067930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083186487","display_name":"Liangjie Liu","orcid":null},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]},{"id":"https://openalex.org/I4210159420","display_name":"Shanghai Children's Hospital","ror":"https://ror.org/05pea1m70","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210159420"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Liangjie Liu","raw_affiliation_strings":["Bio-X Institutes, Key Laboratory for the Genetics of Developmental and Neuropsychiatric Disorders, Shanghai Jiao Tong University , No. 1954 Huashan Road, Xuhui District, Shanghai 200030 ,","Shanghai Institute of Medical Genetics, Shanghai Children\u2019s Hospital, Shanghai Jiao Tong University School of Medicine , No. 24 Lane 1400 West Beijing Road, Jing\u2019an District, Shanghai 200040 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bio-X Institutes, Key Laboratory for the Genetics of Developmental and Neuropsychiatric Disorders, Shanghai Jiao Tong University , No. 1954 Huashan Road, Xuhui District, Shanghai 200030 ,","institution_ids":["https://openalex.org/I183067930"]},{"raw_affiliation_string":"Shanghai Institute of Medical Genetics, Shanghai Children\u2019s Hospital, Shanghai Jiao Tong University School of Medicine , No. 24 Lane 1400 West Beijing Road, Jing\u2019an District, Shanghai 200040 ,","institution_ids":["https://openalex.org/I4210159420","https://openalex.org/I183067930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5114942007","display_name":"Zhuo-Ning Xian","orcid":null},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhuo-Ning Xian","raw_affiliation_strings":["School of Environmental Science & Engineering, Shanghai Jiao Tong University , No. 800 Dongchuan Road, Minhang District, Shanghai 200240 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Environmental Science & Engineering, Shanghai Jiao Tong University , No. 800 Dongchuan Road, Minhang District, Shanghai 200240 ,","institution_ids":["https://openalex.org/I183067930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5037310344","display_name":"Xiaoxi Wei","orcid":"https://orcid.org/0000-0002-4387-9161"},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiaoxi Wei","raw_affiliation_strings":["Bio-X Institutes, Key Laboratory for the Genetics of Developmental and Neuropsychiatric Disorders, Shanghai Jiao Tong University , No. 1954 Huashan Road, Xuhui District, Shanghai 200030 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bio-X Institutes, Key Laboratory for the Genetics of Developmental and Neuropsychiatric Disorders, Shanghai Jiao Tong University , No. 1954 Huashan Road, Xuhui District, Shanghai 200030 ,","institution_ids":["https://openalex.org/I183067930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5049903475","display_name":"Keyi Li","orcid":"https://orcid.org/0000-0002-0930-2027"},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]},{"id":"https://openalex.org/I4210159420","display_name":"Shanghai Children's Hospital","ror":"https://ror.org/05pea1m70","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210159420"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Keyi Li","raw_affiliation_strings":["Bio-X Institutes, Key Laboratory for the Genetics of Developmental and Neuropsychiatric Disorders, Shanghai Jiao Tong University , No. 1954 Huashan Road, Xuhui District, Shanghai 200030 ,","Shanghai Institute of Medical Genetics, Shanghai Children\u2019s Hospital, Shanghai Jiao Tong University School of Medicine , No. 24 Lane 1400 West Beijing Road, Jing\u2019an District, Shanghai 200040 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bio-X Institutes, Key Laboratory for the Genetics of Developmental and Neuropsychiatric Disorders, Shanghai Jiao Tong University , No. 1954 Huashan Road, Xuhui District, Shanghai 200030 ,","institution_ids":["https://openalex.org/I183067930"]},{"raw_affiliation_string":"Shanghai Institute of Medical Genetics, Shanghai Children\u2019s Hospital, Shanghai Jiao Tong University School of Medicine , No. 24 Lane 1400 West Beijing Road, Jing\u2019an District, Shanghai 200040 ,","institution_ids":["https://openalex.org/I4210159420","https://openalex.org/I183067930"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Wenqian Yan","orcid":null},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]},{"id":"https://openalex.org/I4210159420","display_name":"Shanghai Children's Hospital","ror":"https://ror.org/05pea1m70","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210159420"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Wenqian Yan","raw_affiliation_strings":["Bio-X Institutes, Key Laboratory for the Genetics of Developmental and Neuropsychiatric Disorders, Shanghai Jiao Tong University , No. 1954 Huashan Road, Xuhui District, Shanghai 200030 ,","Shanghai Institute of Medical Genetics, Shanghai Children\u2019s Hospital, Shanghai Jiao Tong University School of Medicine , No. 24 Lane 1400 West Beijing Road, Jing\u2019an District, Shanghai 200040 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bio-X Institutes, Key Laboratory for the Genetics of Developmental and Neuropsychiatric Disorders, Shanghai Jiao Tong University , No. 1954 Huashan Road, Xuhui District, Shanghai 200030 ,","institution_ids":["https://openalex.org/I183067930"]},{"raw_affiliation_string":"Shanghai Institute of Medical Genetics, Shanghai Children\u2019s Hospital, Shanghai Jiao Tong University School of Medicine , No. 24 Lane 1400 West Beijing Road, Jing\u2019an District, Shanghai 200040 ,","institution_ids":["https://openalex.org/I4210159420","https://openalex.org/I183067930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051730015","display_name":"Qing L\u00fc","orcid":"https://orcid.org/0000-0002-6956-3333"},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qing Lu","raw_affiliation_strings":["Bio-X Institutes, Key Laboratory for the Genetics of Developmental and Neuropsychiatric Disorders, Shanghai Jiao Tong University , No. 1954 Huashan Road, Xuhui District, Shanghai 200030 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bio-X Institutes, Key Laboratory for the Genetics of Developmental and Neuropsychiatric Disorders, Shanghai Jiao Tong University , No. 1954 Huashan Road, Xuhui District, Shanghai 200030 ,","institution_ids":["https://openalex.org/I183067930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045138262","display_name":"Yi Shi","orcid":"https://orcid.org/0000-0003-4202-3297"},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]},{"id":"https://openalex.org/I4210159420","display_name":"Shanghai Children's Hospital","ror":"https://ror.org/05pea1m70","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210159420"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yi Shi","raw_affiliation_strings":["Bio-X Institutes, Key Laboratory for the Genetics of Developmental and Neuropsychiatric Disorders, Shanghai Jiao Tong University , No. 1954 Huashan Road, Xuhui District, Shanghai 200030 ,","Shanghai Institute of Medical Genetics, Shanghai Children\u2019s Hospital, Shanghai Jiao Tong University School of Medicine , No. 24 Lane 1400 West Beijing Road, Jing\u2019an District, Shanghai 200040 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bio-X Institutes, Key Laboratory for the Genetics of Developmental and Neuropsychiatric Disorders, Shanghai Jiao Tong University , No. 1954 Huashan Road, Xuhui District, Shanghai 200030 ,","institution_ids":["https://openalex.org/I183067930"]},{"raw_affiliation_string":"Shanghai Institute of Medical Genetics, Shanghai Children\u2019s Hospital, Shanghai Jiao Tong University School of Medicine , No. 24 Lane 1400 West Beijing Road, Jing\u2019an District, Shanghai 200040 ,","institution_ids":["https://openalex.org/I4210159420","https://openalex.org/I183067930"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5036414175","display_name":"Guang He","orcid":"https://orcid.org/0000-0002-4911-088X"},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]},{"id":"https://openalex.org/I4210159420","display_name":"Shanghai Children's Hospital","ror":"https://ror.org/05pea1m70","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210159420"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Guang He","raw_affiliation_strings":["Bio-X Institutes, Key Laboratory for the Genetics of Developmental and Neuropsychiatric Disorders, Shanghai Jiao Tong University , No. 1954 Huashan Road, Xuhui District, Shanghai 200030 ,","Shanghai Institute of Medical Genetics, Shanghai Children\u2019s Hospital, Shanghai Jiao Tong University School of Medicine , No. 24 Lane 1400 West Beijing Road, Jing\u2019an District, Shanghai 200040 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bio-X Institutes, Key Laboratory for the Genetics of Developmental and Neuropsychiatric Disorders, Shanghai Jiao Tong University , No. 1954 Huashan Road, Xuhui District, Shanghai 200030 ,","institution_ids":["https://openalex.org/I183067930"]},{"raw_affiliation_string":"Shanghai Institute of Medical Genetics, Shanghai Children\u2019s Hospital, Shanghai Jiao Tong University School of Medicine , No. 24 Lane 1400 West Beijing Road, Jing\u2019an District, Shanghai 200040 ,","institution_ids":["https://openalex.org/I4210159420","https://openalex.org/I183067930"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5089539598"],"corresponding_institution_ids":["https://openalex.org/I183067930","https://openalex.org/I4210159420"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":3.0035,"has_fulltext":true,"cited_by_count":5,"citation_normalized_percentile":{"value":0.9087515,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"26","issue":"3","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10604","display_name":"RNA Research and Splicing","score":0.9998000264167786,"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/T10604","display_name":"RNA Research and Splicing","score":0.9998000264167786,"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/T11482","display_name":"RNA modifications and cancer","score":0.9991999864578247,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9990000128746033,"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":0.7200173139572144},{"id":"https://openalex.org/keywords/generalizability-theory","display_name":"Generalizability theory","score":0.6411029100418091},{"id":"https://openalex.org/keywords/limiting","display_name":"Limiting","score":0.6096072196960449},{"id":"https://openalex.org/keywords/python","display_name":"Python (programming language)","score":0.5655370354652405},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.42306411266326904},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3765864074230194},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.19069841504096985},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.108735591173172}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7200173139572144},{"id":"https://openalex.org/C27158222","wikidata":"https://www.wikidata.org/wiki/Q5532422","display_name":"Generalizability theory","level":2,"score":0.6411029100418091},{"id":"https://openalex.org/C188198153","wikidata":"https://www.wikidata.org/wiki/Q1613840","display_name":"Limiting","level":2,"score":0.6096072196960449},{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.5655370354652405},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.42306411266326904},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3765864074230194},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.19069841504096985},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.108735591173172},{"id":"https://openalex.org/C78519656","wikidata":"https://www.wikidata.org/wiki/Q101333","display_name":"Mechanical engineering","level":1,"score":0.0},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.0},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.0}],"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":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000095496","descriptor_name":"Phase Separation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000095496","descriptor_name":"Phase Separation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000095496","descriptor_name":"Phase Separation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000095496","descriptor_name":"Phase Separation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000095496","descriptor_name":"Phase Separation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","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":"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":"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":"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":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbaf171","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf171","pdf_url":"https://academic.oup.com/bib/article-pdf/26/3/bbaf171/63046455/bbaf171.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:40315433","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40315433","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:pubmedcentral.nih.gov:12047702","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12047702","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbaf171","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf171","pdf_url":"https://academic.oup.com/bib/article-pdf/26/3/bbaf171/63046455/bbaf171.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","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/G1316905329","display_name":null,"funder_award_id":"2017SHZDZX01","funder_id":"https://openalex.org/F4320321543","funder_display_name":"China Postdoctoral Science Foundation"},{"id":"https://openalex.org/G1473670805","display_name":null,"funder_award_id":"2023ZKZD16","funder_id":"https://openalex.org/F4320321881","funder_display_name":"Shanghai Municipal Education Commission"},{"id":"https://openalex.org/G1612311049","display_name":null,"funder_award_id":"2022YFE0125300","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"},{"id":"https://openalex.org/G2315389682","display_name":null,"funder_award_id":"82071262","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3669426352","display_name":null,"funder_award_id":"32450663","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3832934012","display_name":null,"funder_award_id":"YG2024QNA59","funder_id":"https://openalex.org/F4320322999","funder_display_name":"Shanghai Jiao Tong University"},{"id":"https://openalex.org/G4638040690","display_name":null,"funder_award_id":"32470742","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5683980960","display_name":null,"funder_award_id":"82301682","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5795166972","display_name":null,"funder_award_id":"2024YFC2707002","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"},{"id":"https://openalex.org/G6044760167","display_name":null,"funder_award_id":"2017SHZDZX01","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7271263264","display_name":null,"funder_award_id":"2017SHZDZX01","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"},{"id":"https://openalex.org/G730627135","display_name":null,"funder_award_id":"YG2022QN111","funder_id":"https://openalex.org/F4320322999","funder_display_name":"Shanghai Jiao Tong University"},{"id":"https://openalex.org/G7458083525","display_name":null,"funder_award_id":"YG2022ZD024","funder_id":"https://openalex.org/F4320322999","funder_display_name":"Shanghai Jiao Tong University"},{"id":"https://openalex.org/G7826021058","display_name":null,"funder_award_id":"2023M732266","funder_id":"https://openalex.org/F4320321543","funder_display_name":"China Postdoctoral Science Foundation"},{"id":"https://openalex.org/G8719990922","display_name":null,"funder_award_id":"32300464","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G8867639108","display_name":null,"funder_award_id":"YG2023ZD26","funder_id":"https://openalex.org/F4320322999","funder_display_name":"Shanghai Jiao Tong University"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320321543","display_name":"China Postdoctoral Science Foundation","ror":"https://ror.org/0426zh255"},{"id":"https://openalex.org/F4320321881","display_name":"Shanghai Municipal Education Commission","ror":"https://ror.org/05tewj457"},{"id":"https://openalex.org/F4320322999","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04"},{"id":"https://openalex.org/F4320335777","display_name":"National Key Research and Development Program of China","ror":null}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4410020031.pdf","grobid_xml":"https://content.openalex.org/works/W4410020031.grobid-xml"},"referenced_works_count":70,"referenced_works":["https://openalex.org/W1501531009","https://openalex.org/W1912455695","https://openalex.org/W2036157234","https://openalex.org/W2119651404","https://openalex.org/W2125272201","https://openalex.org/W2139995722","https://openalex.org/W2143612940","https://openalex.org/W2168639701","https://openalex.org/W2170747616","https://openalex.org/W2366572993","https://openalex.org/W2425405879","https://openalex.org/W2472573833","https://openalex.org/W2501424458","https://openalex.org/W2591833128","https://openalex.org/W2593862218","https://openalex.org/W2754081936","https://openalex.org/W2765486298","https://openalex.org/W2786469974","https://openalex.org/W2795947967","https://openalex.org/W2810866092","https://openalex.org/W2895781865","https://openalex.org/W2898416998","https://openalex.org/W2903367686","https://openalex.org/W2943959526","https://openalex.org/W2952309189","https://openalex.org/W2969279439","https://openalex.org/W2977849281","https://openalex.org/W2977994867","https://openalex.org/W2980646921","https://openalex.org/W2990435446","https://openalex.org/W2991067665","https://openalex.org/W2996601614","https://openalex.org/W3005177895","https://openalex.org/W3010177015","https://openalex.org/W3017333675","https://openalex.org/W3046463281","https://openalex.org/W3099323319","https://openalex.org/W3108579746","https://openalex.org/W3112123143","https://openalex.org/W3114473647","https://openalex.org/W3127087732","https://openalex.org/W3143253488","https://openalex.org/W3177828909","https://openalex.org/W3199639770","https://openalex.org/W3208422419","https://openalex.org/W3209435229","https://openalex.org/W4205392984","https://openalex.org/W4212848381","https://openalex.org/W4281490610","https://openalex.org/W4281688348","https://openalex.org/W4309413412","https://openalex.org/W4312348652","https://openalex.org/W4313429659","https://openalex.org/W4319312007","https://openalex.org/W4323350303","https://openalex.org/W4327550249","https://openalex.org/W4386861232","https://openalex.org/W4387934645","https://openalex.org/W4390885715","https://openalex.org/W4391379655","https://openalex.org/W4391383720","https://openalex.org/W4392018880","https://openalex.org/W4392602420","https://openalex.org/W4393189158","https://openalex.org/W4393317567","https://openalex.org/W4393410976","https://openalex.org/W4401387454","https://openalex.org/W4403783647","https://openalex.org/W4407357261","https://openalex.org/W6767498865"],"related_works":["https://openalex.org/W2118717649","https://openalex.org/W2413243053","https://openalex.org/W410723623","https://openalex.org/W2015341305","https://openalex.org/W2035068594","https://openalex.org/W4225593417","https://openalex.org/W2573498121","https://openalex.org/W3022298670","https://openalex.org/W3160494304","https://openalex.org/W2388888344"],"abstract_inverted_index":{"Phase":[0,58],"separation":[1],"(PS)":[2],"is":[3],"essential":[4],"in":[5,54,129],"cellular":[6],"processes":[7],"and":[8,21,44,87,125,158,166,181],"disease":[9],"mechanisms,":[10],"highlighting":[11],"the":[12,116,120],"need":[13],"for":[14,90,176],"predictive":[15],"algorithms":[16],"to":[17,39,48,147],"analyze":[18],"uncharacterized":[19],"sequences":[20,40,78],"accelerate":[22],"experimental":[23],"validation.":[24],"Current":[25],"high-accuracy":[26],"methods":[27],"often":[28],"rely":[29],"on":[30,155],"extensive":[31],"annotations":[32,43],"or":[33],"handcrafted":[34],"features,":[35],"limiting":[36],"their":[37],"generalizability":[38],"lacking":[41],"such":[42],"making":[45],"it":[46],"difficult":[47],"identify":[49],"key":[50],"protein":[51,77,178],"regions":[52],"involved":[53],"PS.":[55],"We":[56],"introduce":[57],"Separation's":[59],"Transfer-learning":[60],"Prediction":[61],"(PSTP),":[62],"which":[63],"combines":[64],"conformational":[65],"embeddings":[66],"with":[67,104],"large":[68],"language":[69],"model":[70],"embeddings,":[71],"enabling":[72],"state-of-the-art":[73],"PS":[74,107,127,179],"predictions":[75,99],"from":[76],"alone.":[79],"PSTP":[80,96,114,171],"performs":[81],"well":[82],"across":[83],"various":[84],"prediction":[85],"scenarios":[86],"shows":[88],"potential":[89],"predicting":[91],"novel-designed":[92],"artificial":[93],"proteins.":[94],"Additionally,":[95],"provides":[97,172],"residue-level":[98,126],"that":[100],"are":[101],"highly":[102],"correlated":[103],"experimentally":[105],"validated":[106],"regions.":[108],"By":[109],"analyzing":[110],"160":[111],"000+":[112],"variants,":[113],"characterizes":[115],"strong":[117],"link":[118],"between":[119],"incidence":[121],"of":[122],"pathogenic":[123],"variants":[124],"propensities":[128],"unconserved":[130],"intrinsically":[131],"disordered":[132],"regions,":[133],"offering":[134],"insights":[135],"into":[136],"underexplored":[137],"mutation":[138],"effects.":[139],"PSTP's":[140],"sliding-window":[141],"optimization":[142],"reduces":[143],"its":[144],"memory":[145],"usage":[146],"a":[148,163,173],"few":[149],"hundred":[150],"megabytes,":[151],"facilitating":[152],"rapid":[153],"execution":[154],"typical":[156],"CPUs":[157],"GPUs.":[159],"Offered":[160],"via":[161],"both":[162],"web":[164],"server":[165],"an":[167],"installable":[168],"Python":[169],"package,":[170],"versatile":[174],"tool":[175],"decoding":[177],"behavior":[180],"supporting":[182],"disease-focused":[183],"research.":[184]},"counts_by_year":[{"year":2026,"cited_by_count":5}],"updated_date":"2026-06-02T09:04:35.204637","created_date":"2025-10-10T00:00:00"}
