{"id":"https://openalex.org/W4401158095","doi":"https://doi.org/10.1093/bib/bbae373","title":"CatLearning: highly accurate gene expression prediction from histone mark","display_name":"CatLearning: highly accurate gene expression prediction from histone mark","publication_year":2024,"publication_date":"2024-07-25","ids":{"openalex":"https://openalex.org/W4401158095","doi":"https://doi.org/10.1093/bib/bbae373","pmid":"https://pubmed.ncbi.nlm.nih.gov/39073831"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbae373","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae373","pdf_url":"https://academic.oup.com/bib/article-pdf/25/5/bbae373/58677153/bbae373.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/25/5/bbae373/58677153/bbae373.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5075352865","display_name":"Weining Lu","orcid":"https://orcid.org/0000-0002-0927-1259"},"institutions":[{"id":"https://openalex.org/I99065089","display_name":"Tsinghua University","ror":"https://ror.org/03cve4549","country_code":"CN","type":"education","lineage":["https://openalex.org/I99065089"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Weining Lu","raw_affiliation_strings":["Tsinghua University Beijing National Research Center for Information Science and Technology, , FIT Building, Haidian District, Beijing 100084, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Tsinghua University Beijing National Research Center for Information Science and Technology, , FIT Building, Haidian District, Beijing 100084, China","institution_ids":["https://openalex.org/I99065089"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101807973","display_name":"Yin Tang","orcid":null},"institutions":[{"id":"https://openalex.org/I76130692","display_name":"Zhejiang University","ror":"https://ror.org/00a2xv884","country_code":"CN","type":"education","lineage":["https://openalex.org/I76130692"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yin Tang","raw_affiliation_strings":["Zhejiang University Liangzhu Laboratory, , 1369 Wenyixi Road, Yuhang District, Hangzhou, Zhejiang, 311121, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Zhejiang University Liangzhu Laboratory, , 1369 Wenyixi Road, Yuhang District, Hangzhou, Zhejiang, 311121, China","institution_ids":["https://openalex.org/I76130692"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100618357","display_name":"Y\u00fc Liu","orcid":"https://orcid.org/0000-0003-2211-3535"},"institutions":[{"id":"https://openalex.org/I76130692","display_name":"Zhejiang University","ror":"https://ror.org/00a2xv884","country_code":"CN","type":"education","lineage":["https://openalex.org/I76130692"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yu Liu","raw_affiliation_strings":["Zhejiang University Life Sciences Institute, , 866 Yuhangtang Road, Xihu District, Hangzhou, Zhejiang, 310058, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Zhejiang University Life Sciences Institute, , 866 Yuhangtang Road, Xihu District, Hangzhou, Zhejiang, 310058, China","institution_ids":["https://openalex.org/I76130692"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066755175","display_name":"Shiyi Lin","orcid":"https://orcid.org/0000-0002-9026-8275"},"institutions":[{"id":"https://openalex.org/I76130692","display_name":"Zhejiang University","ror":"https://ror.org/00a2xv884","country_code":"CN","type":"education","lineage":["https://openalex.org/I76130692"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shiyi Lin","raw_affiliation_strings":["Zhejiang University Life Sciences Institute, , 866 Yuhangtang Road, Xihu District, Hangzhou, Zhejiang, 310058, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Zhejiang University Life Sciences Institute, , 866 Yuhangtang Road, Xihu District, Hangzhou, Zhejiang, 310058, China","institution_ids":["https://openalex.org/I76130692"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5106159943","display_name":"Qifan Shuai","orcid":null},"institutions":[{"id":"https://openalex.org/I4403386554","display_name":"Southeast University Chengxian College","ror":"https://ror.org/03mfb3630","country_code":null,"type":"education","lineage":["https://openalex.org/I4403386554"]},{"id":"https://openalex.org/I76569877","display_name":"Southeast University","ror":"https://ror.org/04ct4d772","country_code":"CN","type":"education","lineage":["https://openalex.org/I76569877"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qifan Shuai","raw_affiliation_strings":["Southeast University Chengxian College School of Electron and Computer, , 371 Heyan Road, Qixia District, Nanjing, Jiangsu 210088, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Southeast University Chengxian College School of Electron and Computer, , 371 Heyan Road, Qixia District, Nanjing, Jiangsu 210088, China","institution_ids":["https://openalex.org/I76569877","https://openalex.org/I4403386554"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100644629","display_name":"Bin Liang","orcid":"https://orcid.org/0000-0002-7163-345X"},"institutions":[{"id":"https://openalex.org/I99065089","display_name":"Tsinghua University","ror":"https://ror.org/03cve4549","country_code":"CN","type":"education","lineage":["https://openalex.org/I99065089"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Bin Liang","raw_affiliation_strings":["Tsinghua University Department of Automation, , 1 Tsinghua Garden, Haidian District, Beijing, 100084, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Tsinghua University Department of Automation, , 1 Tsinghua Garden, Haidian District, Beijing, 100084, China","institution_ids":["https://openalex.org/I99065089"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100695807","display_name":"Rongqing Zhang","orcid":"https://orcid.org/0000-0001-9292-446X"},"institutions":[{"id":"https://openalex.org/I99065089","display_name":"Tsinghua University","ror":"https://ror.org/03cve4549","country_code":"CN","type":"education","lineage":["https://openalex.org/I99065089"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Rongqing Zhang","raw_affiliation_strings":["Yangtze Delta Region Institute of Tsinghua University Zhejiang Provincial Key Laboratory of Applied Enzymology, , 705 Yatai Road, Jiaxing 314006, China"],"raw_orcid":"https://orcid.org/0000-0001-9292-446X","affiliations":[{"raw_affiliation_string":"Yangtze Delta Region Institute of Tsinghua University Zhejiang Provincial Key Laboratory of Applied Enzymology, , 705 Yatai Road, Jiaxing 314006, China","institution_ids":["https://openalex.org/I99065089"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101335128","display_name":"Yu Cheng","orcid":null},"institutions":[{"id":"https://openalex.org/I177725633","display_name":"Chinese University of Hong Kong","ror":"https://ror.org/00t33hh48","country_code":"HK","type":"education","lineage":["https://openalex.org/I177725633"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Yu Cheng","raw_affiliation_strings":["The Chinese University of Hong Kong , Shatin, NT, Hong Kong, 999077, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"The Chinese University of Hong Kong , Shatin, NT, Hong Kong, 999077, China","institution_ids":["https://openalex.org/I177725633"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5060873221","display_name":"Fang Dong","orcid":"https://orcid.org/0000-0002-9807-5224"},"institutions":[{"id":"https://openalex.org/I76130692","display_name":"Zhejiang University","ror":"https://ror.org/00a2xv884","country_code":"CN","type":"education","lineage":["https://openalex.org/I76130692"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Dong Fang","raw_affiliation_strings":["The Second Affiliated Hospital, Zhejiang University School of Medicine Department of Medical Oncology, , Key Laboratory of Cancer Prevention and Intervention, China National Ministry of Education, 88 Jiefang Road, Shangcheng District, Hangzhou, Zhejiang, 310009, China","Zhejiang University Life Sciences Institute, , 866 Yuhangtang Road, Xihu District, Hangzhou, Zhejiang, 310058, China"],"raw_orcid":"https://orcid.org/0000-0002-9807-5224","affiliations":[{"raw_affiliation_string":"The Second Affiliated Hospital, Zhejiang University School of Medicine Department of Medical Oncology, , Key Laboratory of Cancer Prevention and Intervention, China National Ministry of Education, 88 Jiefang Road, Shangcheng District, Hangzhou, Zhejiang, 310009, China","institution_ids":["https://openalex.org/I76130692"]},{"raw_affiliation_string":"Zhejiang University Life Sciences Institute, , 866 Yuhangtang Road, Xihu District, Hangzhou, Zhejiang, 310058, China","institution_ids":["https://openalex.org/I76130692"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":0.3732,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.60125376,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":95,"max":96},"biblio":{"volume":"25","issue":"5","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9998999834060669,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9998999834060669,"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/T10269","display_name":"Epigenetics and DNA Methylation","score":0.9961000084877014,"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/T10604","display_name":"RNA Research and Splicing","score":0.9948999881744385,"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/histone","display_name":"Histone","score":0.7617141008377075},{"id":"https://openalex.org/keywords/epigenetics","display_name":"Epigenetics","score":0.6430487036705017},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6178450584411621},{"id":"https://openalex.org/keywords/chromatin","display_name":"Chromatin","score":0.6174853444099426},{"id":"https://openalex.org/keywords/epigenomics","display_name":"Epigenomics","score":0.5437355041503906},{"id":"https://openalex.org/keywords/chromatin-immunoprecipitation","display_name":"Chromatin immunoprecipitation","score":0.48370295763015747},{"id":"https://openalex.org/keywords/histone-code","display_name":"Histone code","score":0.47787514328956604},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4360668659210205},{"id":"https://openalex.org/keywords/regulation-of-gene-expression","display_name":"Regulation of gene expression","score":0.422350138425827},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.41872429847717285},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.40462806820869446},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3323383331298828},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3203103244304657},{"id":"https://openalex.org/keywords/promoter","display_name":"Promoter","score":0.16771474480628967},{"id":"https://openalex.org/keywords/nucleosome","display_name":"Nucleosome","score":0.11375623941421509},{"id":"https://openalex.org/keywords/dna-methylation","display_name":"DNA methylation","score":0.07453650236129761}],"concepts":[{"id":"https://openalex.org/C64927066","wikidata":"https://www.wikidata.org/wiki/Q36293","display_name":"Histone","level":3,"score":0.7617141008377075},{"id":"https://openalex.org/C41091548","wikidata":"https://www.wikidata.org/wiki/Q26939","display_name":"Epigenetics","level":3,"score":0.6430487036705017},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6178450584411621},{"id":"https://openalex.org/C83640560","wikidata":"https://www.wikidata.org/wiki/Q180951","display_name":"Chromatin","level":3,"score":0.6174853444099426},{"id":"https://openalex.org/C121912465","wikidata":"https://www.wikidata.org/wiki/Q3589153","display_name":"Epigenomics","level":5,"score":0.5437355041503906},{"id":"https://openalex.org/C134320426","wikidata":"https://www.wikidata.org/wiki/Q901026","display_name":"Chromatin immunoprecipitation","level":5,"score":0.48370295763015747},{"id":"https://openalex.org/C10058791","wikidata":"https://www.wikidata.org/wiki/Q910897","display_name":"Histone code","level":5,"score":0.47787514328956604},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4360668659210205},{"id":"https://openalex.org/C165864922","wikidata":"https://www.wikidata.org/wiki/Q411391","display_name":"Regulation of gene expression","level":3,"score":0.422350138425827},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.41872429847717285},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.40462806820869446},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3323383331298828},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3203103244304657},{"id":"https://openalex.org/C101762097","wikidata":"https://www.wikidata.org/wiki/Q224093","display_name":"Promoter","level":4,"score":0.16771474480628967},{"id":"https://openalex.org/C84772758","wikidata":"https://www.wikidata.org/wiki/Q271794","display_name":"Nucleosome","level":4,"score":0.11375623941421509},{"id":"https://openalex.org/C190727270","wikidata":"https://www.wikidata.org/wiki/Q874745","display_name":"DNA methylation","level":4,"score":0.07453650236129761}],"mesh":[{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006657","descriptor_name":"Histones","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D006657","descriptor_name":"Histones","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D006657","descriptor_name":"Histones","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D006657","descriptor_name":"Histones","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D006657","descriptor_name":"Histones","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D006657","descriptor_name":"Histones","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D006657","descriptor_name":"Histones","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D006657","descriptor_name":"Histones","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D006657","descriptor_name":"Histones","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D006657","descriptor_name":"Histones","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"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":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D042421","descriptor_name":"Histone Code","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D042421","descriptor_name":"Histone Code","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D042421","descriptor_name":"Histone Code","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D042421","descriptor_name":"Histone Code","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D042421","descriptor_name":"Histone Code","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D044127","descriptor_name":"Epigenesis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D044127","descriptor_name":"Epigenesis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D044127","descriptor_name":"Epigenesis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D044127","descriptor_name":"Epigenesis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D044127","descriptor_name":"Epigenesis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbae373","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae373","pdf_url":"https://academic.oup.com/bib/article-pdf/25/5/bbae373/58677153/bbae373.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:39073831","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39073831","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:11285185","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11285185","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11285185/pdf/bbae373.pdf","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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbae373","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae373","pdf_url":"https://academic.oup.com/bib/article-pdf/25/5/bbae373/58677153/bbae373.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/G3633984072","display_name":null,"funder_award_id":"81874153","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3678049236","display_name":null,"funder_award_id":"32361133547","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3760006649","display_name":null,"funder_award_id":"2022YFA1302800","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"},{"id":"https://openalex.org/G4063879383","display_name":null,"funder_award_id":"32361133547, 32370613, 32222017, and 81874153","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5908183215","display_name":null,"funder_award_id":"32222017","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6152813893","display_name":null,"funder_award_id":"LZ24C060001","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6235354097","display_name":null,"funder_award_id":"2022SKLS-KFKT002","funder_id":"https://openalex.org/F4320335305","funder_display_name":"School of Medicine, Shanghai Jiao Tong University"},{"id":"https://openalex.org/G6750594380","display_name":null,"funder_award_id":"and 81874153","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7335895952","display_name":null,"funder_award_id":"32370613","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G840703371","display_name":null,"funder_award_id":"2019QN81005","funder_id":"https://openalex.org/F4320335787","funder_display_name":"Fundamental Research Funds for the Central Universities"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320322999","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04"},{"id":"https://openalex.org/F4320335305","display_name":"School of Medicine, 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},{"id":"https://openalex.org/F4320335787","display_name":"Fundamental Research Funds for the Central Universities","ror":null},{"id":"https://openalex.org/F4320338464","display_name":"Natural Science Foundation of Zhejiang Province","ror":"https://ror.org/01h0zpd94"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4401158095.pdf"},"referenced_works_count":64,"referenced_works":["https://openalex.org/W1963740134","https://openalex.org/W1985621639","https://openalex.org/W1994855470","https://openalex.org/W1997639391","https://openalex.org/W1999478182","https://openalex.org/W2002698073","https://openalex.org/W2015416439","https://openalex.org/W2031057223","https://openalex.org/W2065006553","https://openalex.org/W2068078666","https://openalex.org/W2070021921","https://openalex.org/W2104005232","https://openalex.org/W2107866789","https://openalex.org/W2108871359","https://openalex.org/W2127081697","https://openalex.org/W2136430672","https://openalex.org/W2142205294","https://openalex.org/W2143658931","https://openalex.org/W2158789637","https://openalex.org/W2164116506","https://openalex.org/W2169456326","https://openalex.org/W2170551349","https://openalex.org/W2171234597","https://openalex.org/W2171808845","https://openalex.org/W2259938310","https://openalex.org/W2401568148","https://openalex.org/W2479945688","https://openalex.org/W2553838260","https://openalex.org/W2602710346","https://openalex.org/W2606675097","https://openalex.org/W2739174192","https://openalex.org/W2798012365","https://openalex.org/W2801568996","https://openalex.org/W2905183150","https://openalex.org/W2906884244","https://openalex.org/W2937151182","https://openalex.org/W2949859852","https://openalex.org/W2953369069","https://openalex.org/W2963242855","https://openalex.org/W2988126442","https://openalex.org/W2991283206","https://openalex.org/W2994125457","https://openalex.org/W3003652588","https://openalex.org/W3007305969","https://openalex.org/W3007609047","https://openalex.org/W3123061908","https://openalex.org/W3123961751","https://openalex.org/W3140854437","https://openalex.org/W3156107948","https://openalex.org/W3175752499","https://openalex.org/W3177828909","https://openalex.org/W3207109112","https://openalex.org/W3209498761","https://openalex.org/W4221000785","https://openalex.org/W4226106593","https://openalex.org/W4255840500","https://openalex.org/W4308239184","https://openalex.org/W4317207660","https://openalex.org/W4327550249","https://openalex.org/W4367173850","https://openalex.org/W4388454971","https://openalex.org/W4389627922","https://openalex.org/W6742092700","https://openalex.org/W6797786779"],"related_works":["https://openalex.org/W2902465419","https://openalex.org/W4318473910","https://openalex.org/W2790955376","https://openalex.org/W4206385008","https://openalex.org/W2409346858","https://openalex.org/W2624897240","https://openalex.org/W2966258113","https://openalex.org/W4255108052","https://openalex.org/W2324198892","https://openalex.org/W2106013412"],"abstract_inverted_index":{"Histone":[0],"modifications,":[1],"known":[2],"as":[3],"histone":[4,21,65,75,92,110,125],"marks,":[5],"are":[6],"pivotal":[7],"in":[8,27,109],"regulating":[9],"gene":[10,69,104],"expression":[11,105],"within":[12],"cells.":[13],"The":[14],"vast":[15],"array":[16],"of":[17,20,99,124],"potential":[18],"combinations":[19],"marks":[22,66,126],"presents":[23],"a":[24,44,50,57,96],"considerable":[25],"challenge":[26],"decoding":[28],"the":[29,116,122],"regulatory":[30],"mechanisms":[31],"solely":[32],"through":[33],"biological":[34],"experimental":[35],"approaches.":[36],"To":[37],"overcome":[38],"this":[39],"challenge,":[40],"we":[41],"have":[42],"developed":[43],"method":[45],"called":[46],"CatLearning.":[47],"It":[48],"utilizes":[49],"modified":[51],"convolutional":[52],"neural":[53],"network":[54],"architecture":[55,72,123],"with":[56,135],"specialized":[58],"adaptation":[59],"Residual":[60],"Network":[61],"to":[62,78],"quantitatively":[63],"interpret":[64],"and":[67,80,114,127,130],"predict":[68],"expression.":[70],"This":[71],"integrates":[73],"long-range":[74],"information":[76],"up":[77],"500Kb":[79],"learns":[81],"chromatin":[82],"interaction":[83],"features":[84],"without":[85],"3D":[86],"information.":[87],"By":[88],"using":[89],"only":[90],"one":[91],"mark,":[93],"CatLearning":[94,102],"achieves":[95],"high":[97],"level":[98],"accuracy.":[100],"Furthermore,":[101],"predicts":[103],"by":[106],"simulating":[107],"changes":[108],"modifications":[111],"at":[112],"enhancers":[113],"throughout":[115],"genome.":[117],"These":[118],"findings":[119],"help":[120],"comprehend":[121],"develop":[128],"diagnostic":[129],"therapeutic":[131],"targets":[132],"for":[133],"diseases":[134],"epigenetic":[136],"changes.":[137]},"counts_by_year":[{"year":2025,"cited_by_count":2}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
