{"id":"https://openalex.org/W7162339201","doi":"https://doi.org/10.1093/bib/bbag257","title":"KSDiffusion: conditional diffusion for kinase-specific phosphorylation site prediction under data-limited and imbalanced regimes","display_name":"KSDiffusion: conditional diffusion for kinase-specific phosphorylation site prediction under data-limited and imbalanced regimes","publication_year":2026,"publication_date":"2026-05-01","ids":{"openalex":"https://openalex.org/W7162339201","doi":"https://doi.org/10.1093/bib/bbag257","pmid":"https://pubmed.ncbi.nlm.nih.gov/42184115"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbag257","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbag257","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":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://doi.org/10.1093/bib/bbag257","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5136937720","display_name":"Shi Qiu","orcid":null},"institutions":[{"id":"https://openalex.org/I194450716","display_name":"Jilin University","ror":"https://ror.org/00js3aw79","country_code":"CN","type":"education","lineage":["https://openalex.org/I194450716"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shi Qiu","raw_affiliation_strings":["College of Computer Science and Technology, Jilin University , 2699 Qianjin Street, Chaoyang District, Changchun 130012,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Technology, Jilin University , 2699 Qianjin Street, Chaoyang District, Changchun 130012,","institution_ids":["https://openalex.org/I194450716"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5007397249","display_name":"Chunguo Wu","orcid":"https://orcid.org/0000-0002-8161-3997"},"institutions":[{"id":"https://openalex.org/I194450716","display_name":"Jilin University","ror":"https://ror.org/00js3aw79","country_code":"CN","type":"education","lineage":["https://openalex.org/I194450716"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chunguo Wu","raw_affiliation_strings":["College of Computer Science and Technology, Jilin University , 2699 Qianjin Street, Chaoyang District, Changchun 130012,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Technology, Jilin University , 2699 Qianjin Street, Chaoyang District, Changchun 130012,","institution_ids":["https://openalex.org/I194450716"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015881810","display_name":"Y M","orcid":null},"institutions":[{"id":"https://openalex.org/I194450716","display_name":"Jilin University","ror":"https://ror.org/00js3aw79","country_code":"CN","type":"education","lineage":["https://openalex.org/I194450716"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yuxiang Ma","raw_affiliation_strings":["College of Computer Science and Technology, Jilin University , 2699 Qianjin Street, Chaoyang District, Changchun 130012,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Technology, Jilin University , 2699 Qianjin Street, Chaoyang District, Changchun 130012,","institution_ids":["https://openalex.org/I194450716"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5124257491","display_name":"Songye Gao","orcid":null},"institutions":[{"id":"https://openalex.org/I194450716","display_name":"Jilin University","ror":"https://ror.org/00js3aw79","country_code":"CN","type":"education","lineage":["https://openalex.org/I194450716"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Songye Gao","raw_affiliation_strings":["College of Computer Science and Technology, Jilin University , 2699 Qianjin Street, Chaoyang District, Changchun 130012,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Technology, Jilin University , 2699 Qianjin Street, Chaoyang District, Changchun 130012,","institution_ids":["https://openalex.org/I194450716"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5136958426","display_name":"Limin Wang","orcid":null},"institutions":[{"id":"https://openalex.org/I201459984","display_name":"Guangdong University Of Finances and Economics","ror":"https://ror.org/0459pv085","country_code":"CN","type":"education","lineage":["https://openalex.org/I201459984"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Limin Wang","raw_affiliation_strings":["School of Big Data and Artificial Intelligence, Guangdong University of Finance and Economics , 21 Luntou Road, Haizhu District, Guangzhou 510320,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Big Data and Artificial Intelligence, Guangdong University of Finance and Economics , 21 Luntou Road, Haizhu District, Guangzhou 510320,","institution_ids":["https://openalex.org/I201459984"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5136945030","display_name":"Yanchun Liang","orcid":null},"institutions":[{"id":"https://openalex.org/I4210165204","display_name":"Zhuhai Institute of Advanced Technology","ror":"https://ror.org/05r1mzq61","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210145761","https://openalex.org/I4210165204"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yanchun Liang","raw_affiliation_strings":["School of Computer Science, Zhuhai College of Science and Technology , Anji East Road, Jinwan District, Zhuhai 519041,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science, Zhuhai College of Science and Technology , Anji East Road, Jinwan District, Zhuhai 519041,","institution_ids":["https://openalex.org/I4210165204"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5136955573","display_name":"Xiaohu Shi","orcid":null},"institutions":[{"id":"https://openalex.org/I194450716","display_name":"Jilin University","ror":"https://ror.org/00js3aw79","country_code":"CN","type":"education","lineage":["https://openalex.org/I194450716"]},{"id":"https://openalex.org/I201459984","display_name":"Guangdong University Of Finances and Economics","ror":"https://ror.org/0459pv085","country_code":"CN","type":"education","lineage":["https://openalex.org/I201459984"]},{"id":"https://openalex.org/I4210165204","display_name":"Zhuhai Institute of Advanced Technology","ror":"https://ror.org/05r1mzq61","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210145761","https://openalex.org/I4210165204"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Xiaohu Shi","raw_affiliation_strings":["College of Computer Science and Technology, Jilin University , 2699 Qianjin Street, Chaoyang District, Changchun 130012,","School of Big Data and Artificial Intelligence, Guangdong University of Finance and Economics , 21 Luntou Road, Haizhu District, Guangzhou 510320,","School of Computer Science, Zhuhai College of Science and Technology , Anji East Road, Jinwan District, Zhuhai 519041,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Technology, Jilin University , 2699 Qianjin Street, Chaoyang District, Changchun 130012,","institution_ids":["https://openalex.org/I194450716"]},{"raw_affiliation_string":"School of Big Data and Artificial Intelligence, Guangdong University of Finance and Economics , 21 Luntou Road, Haizhu District, Guangzhou 510320,","institution_ids":["https://openalex.org/I201459984"]},{"raw_affiliation_string":"School of Computer Science, Zhuhai College of Science and Technology , Anji East Road, Jinwan District, Zhuhai 519041,","institution_ids":["https://openalex.org/I4210165204"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5136955573"],"corresponding_institution_ids":["https://openalex.org/I194450716","https://openalex.org/I201459984","https://openalex.org/I4210165204"],"apc_list":{"value":3885,"currency":"USD","value_usd":3885},"apc_paid":{"value":3885,"currency":"USD","value_usd":3885},"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.4612385,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"27","issue":"3","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.19900000095367432,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.19900000095367432,"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":0.1453000009059906,"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.12250000238418579,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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/discriminative-model","display_name":"Discriminative model","score":0.7226999998092651},{"id":"https://openalex.org/keywords/generalization","display_name":"Generalization","score":0.5300999879837036},{"id":"https://openalex.org/keywords/generative-grammar","display_name":"Generative grammar","score":0.4659999907016754},{"id":"https://openalex.org/keywords/embedding","display_name":"Embedding","score":0.4309000074863434},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.41609999537467957},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.3723999857902527},{"id":"https://openalex.org/keywords/generative-model","display_name":"Generative model","score":0.3555999994277954}],"concepts":[{"id":"https://openalex.org/C97931131","wikidata":"https://www.wikidata.org/wiki/Q5282087","display_name":"Discriminative model","level":2,"score":0.7226999998092651},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6261000037193298},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.535099983215332},{"id":"https://openalex.org/C177148314","wikidata":"https://www.wikidata.org/wiki/Q170084","display_name":"Generalization","level":2,"score":0.5300999879837036},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.48910000920295715},{"id":"https://openalex.org/C39890363","wikidata":"https://www.wikidata.org/wiki/Q36108","display_name":"Generative grammar","level":2,"score":0.4659999907016754},{"id":"https://openalex.org/C41608201","wikidata":"https://www.wikidata.org/wiki/Q980509","display_name":"Embedding","level":2,"score":0.4309000074863434},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.41609999537467957},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.3723999857902527},{"id":"https://openalex.org/C167966045","wikidata":"https://www.wikidata.org/wiki/Q5532625","display_name":"Generative model","level":3,"score":0.3555999994277954},{"id":"https://openalex.org/C125411270","wikidata":"https://www.wikidata.org/wiki/Q18653","display_name":"Encoding (memory)","level":2,"score":0.33719998598098755},{"id":"https://openalex.org/C11960822","wikidata":"https://www.wikidata.org/wiki/Q242736","display_name":"Phosphorylation","level":2,"score":0.3147999942302704},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.31310001015663147},{"id":"https://openalex.org/C66024118","wikidata":"https://www.wikidata.org/wiki/Q1122506","display_name":"Computational model","level":2,"score":0.27250000834465027},{"id":"https://openalex.org/C87325107","wikidata":"https://www.wikidata.org/wiki/Q7251493","display_name":"Protein phosphorylation","level":4,"score":0.2720000147819519},{"id":"https://openalex.org/C66746571","wikidata":"https://www.wikidata.org/wiki/Q1134833","display_name":"ENCODE","level":3,"score":0.266400009393692},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.2623000144958496},{"id":"https://openalex.org/C51632099","wikidata":"https://www.wikidata.org/wiki/Q3985153","display_name":"Training set","level":2,"score":0.25519999861717224},{"id":"https://openalex.org/C118505674","wikidata":"https://www.wikidata.org/wiki/Q42586063","display_name":"Encoder","level":2,"score":0.25519999861717224},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.2508000135421753}],"mesh":[{"descriptor_ui":"D000098437","descriptor_name":"Prediction Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098437","descriptor_name":"Prediction Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098437","descriptor_name":"Prediction 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":"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":"D010766","descriptor_name":"Phosphorylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010766","descriptor_name":"Phosphorylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010766","descriptor_name":"Phosphorylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010766","descriptor_name":"Phosphorylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010766","descriptor_name":"Phosphorylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011494","descriptor_name":"Protein Kinases","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D011494","descriptor_name":"Protein Kinases","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D011494","descriptor_name":"Protein Kinases","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D011494","descriptor_name":"Protein Kinases","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D011494","descriptor_name":"Protein Kinases","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D011494","descriptor_name":"Protein Kinases","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011494","descriptor_name":"Protein Kinases","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011494","descriptor_name":"Protein Kinases","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011494","descriptor_name":"Protein Kinases","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011494","descriptor_name":"Protein Kinases","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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbag257","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbag257","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":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:42184115","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/42184115","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":"Journal Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:13200545","is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC13200545/","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/bbag257","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbag257","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":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":[{"id":"https://metadata.un.org/sdg/10","display_name":"Reduced inequalities","score":0.7653527855873108}],"awards":[{"id":"https://openalex.org/G533059332","display_name":null,"funder_award_id":"62272192","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":43,"referenced_works":["https://openalex.org/W1995989434","https://openalex.org/W2000334096","https://openalex.org/W2026086206","https://openalex.org/W2030205108","https://openalex.org/W2051147053","https://openalex.org/W2060211561","https://openalex.org/W2068845787","https://openalex.org/W2079568341","https://openalex.org/W2085037886","https://openalex.org/W2106887764","https://openalex.org/W2130277691","https://openalex.org/W2134129243","https://openalex.org/W2137852592","https://openalex.org/W2145680191","https://openalex.org/W2157658519","https://openalex.org/W2170747616","https://openalex.org/W2737403359","https://openalex.org/W2781494417","https://openalex.org/W2800441860","https://openalex.org/W2884639330","https://openalex.org/W2901496107","https://openalex.org/W2903682118","https://openalex.org/W2906052106","https://openalex.org/W2999598723","https://openalex.org/W3024308166","https://openalex.org/W3035106315","https://openalex.org/W3087639767","https://openalex.org/W3128450741","https://openalex.org/W3131637018","https://openalex.org/W3152698349","https://openalex.org/W3163842339","https://openalex.org/W3191805365","https://openalex.org/W3216979156","https://openalex.org/W4283269902","https://openalex.org/W4283754853","https://openalex.org/W4296184108","https://openalex.org/W4315621825","https://openalex.org/W4317868880","https://openalex.org/W4323812728","https://openalex.org/W4375954646","https://openalex.org/W4386708656","https://openalex.org/W4391075295","https://openalex.org/W4391280974"],"related_works":[],"abstract_inverted_index":{"Protein":[0],"phosphorylation":[1,88,241],"governs":[2],"cellular":[3],"signaling,":[4],"making":[5],"accurate":[6],"identification":[7],"of":[8,68,200,221,229],"kinase-specific":[9,87,133,240],"sites":[10],"essential":[11],"for":[12,73,86,93,143,193,238],"understanding":[13],"regulatory":[14],"and":[15,37,57,95,124,159,176,225],"disease":[16],"mechanisms.":[17],"Although":[18],"computational":[19],"approaches":[20],"have":[21],"shown":[22],"promise":[23],"in":[24,40,135],"inferring":[25],"kinase":[26,61,145,171,195],"specificity,":[27],"most":[28],"existing":[29],"methods":[30],"primarily":[31],"rely":[32],"on":[33],"local":[34],"sequence":[35],"patterns":[36],"remain":[38],"limited":[39],"their":[41],"ability":[42],"to":[43,116,202],"capture":[44],"broader":[45],"contextual":[46],"information.":[47],"More":[48],"critically,":[49],"experimentally":[50],"validated":[51],"kinase-substrate":[52],"data":[53,141,212,246],"are":[54,191,213],"inherently":[55],"scarce":[56],"highly":[58],"imbalanced":[59,96],"across":[60,170],"groups,":[62,146,196],"substantially":[63],"restricting":[64],"the":[65,136,218,227],"generalization":[66],"performance":[67,208],"purely":[69],"discriminative":[70],"models,":[71],"especially":[72],"underrepresented":[74],"kinases.":[75],"To":[76,139],"address":[77],"these":[78],"challenges,":[79],"we":[80,147],"propose":[81],"KSDiffusion,":[82],"a":[83,100,149],"unified":[84],"framework":[85],"site":[89,242],"prediction":[90,243],"explicitly":[91],"designed":[92],"data-limited":[94],"regimes.":[97],"KSDiffusion":[98,181],"integrates":[99],"protein":[101,231],"language":[102,232],"model":[103],"with":[104,122,197,234],"task-aware":[105,235],"conditional":[106,150,222],"diffusion-based":[107,223],"generative":[108,236],"modeling.":[109],"Specifically,":[110],"an":[111],"ESM-2-based":[112],"encoder":[113],"is":[114],"employed":[115],"extract":[117],"context-aware":[118],"peptide":[119],"representations":[120,162],"enriched":[121],"evolutionary":[123],"structural":[125],"information,":[126],"while":[127,205],"supervised":[128],"contrastive":[129],"learning":[130],"further":[131],"enhances":[132],"discriminability":[134],"embedding":[137],"space.":[138],"alleviate":[140],"scarcity":[142],"rare":[144],"introduce":[148],"diffusion":[151],"model,":[152],"termed":[153],"KS-DiT,":[154],"which":[155],"generates":[156],"biologically":[157],"plausible":[158],"kinase-consistent":[160],"synthetic":[161],"that":[163,180],"directly":[164],"support":[165],"downstream":[166],"prediction.":[167],"Comprehensive":[168],"experiments":[169],"groups":[172],"spanning":[173],"low-,":[174],"medium-,":[175],"large-data":[177],"regimes":[178],"demonstrate":[179],"consistently":[182],"outperforms":[183],"representative":[184],"baseline":[185],"methods.":[186],"In":[187],"particular,":[188],"substantial":[189],"improvements":[190],"achieved":[192],"data-scarce":[194],"AUC":[198],"gains":[199],"up":[201],"$\\sim":[203],"$15%,":[204],"maintaining":[206],"competitive":[207],"when":[209],"sufficient":[210],"training":[211],"available.":[214],"These":[215],"results":[216],"underscore":[217],"regime-dependent":[219],"effectiveness":[220],"augmentation":[224],"highlight":[226],"value":[228],"integrating":[230],"models":[233],"modeling":[237],"robust":[239],"under":[244],"realistic":[245],"constraints.":[247]},"counts_by_year":[],"updated_date":"2026-08-21T09:56:20.448147","created_date":"2026-05-26T00:00:00"}
