{"id":"https://openalex.org/W4284989069","doi":"https://doi.org/10.1093/bioinformatics/btac489","title":"Identifying modifications on DNA-bound histones with joint deep learning of multiple binding sites in DNA sequence","display_name":"Identifying modifications on DNA-bound histones with joint deep learning of multiple binding sites in DNA sequence","publication_year":2022,"publication_date":"2022-07-09","ids":{"openalex":"https://openalex.org/W4284989069","doi":"https://doi.org/10.1093/bioinformatics/btac489","pmid":"https://pubmed.ncbi.nlm.nih.gov/35809058"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btac489","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btac489","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100380272","display_name":"Yan Li","orcid":"https://orcid.org/0000-0001-8190-1633"},"institutions":[{"id":"https://openalex.org/I3923682","display_name":"Soochow University","ror":"https://ror.org/05t8y2r12","country_code":"CN","type":"education","lineage":["https://openalex.org/I3923682"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yan Li","raw_affiliation_strings":["School of Computer Science and Technology, Soochow University , Suzhou 215006, China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Soochow University , Suzhou 215006, China","institution_ids":["https://openalex.org/I3923682"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102768562","display_name":"Lijun Quan","orcid":null},"institutions":[{"id":"https://openalex.org/I3923682","display_name":"Soochow University","ror":"https://ror.org/05t8y2r12","country_code":"CN","type":"education","lineage":["https://openalex.org/I3923682"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Lijun Quan","raw_affiliation_strings":["Collaborative Innovation Center of Novel Software Technology and Industrialization , Nanjing 210000, China","Province Key Lab for Information Processing Technologies, Soochow University , Suzhou 215006, China","School of Computer Science and Technology, Soochow University , Suzhou 215006, China"],"affiliations":[{"raw_affiliation_string":"Collaborative Innovation Center of Novel Software Technology and Industrialization , Nanjing 210000, China","institution_ids":[]},{"raw_affiliation_string":"Province Key Lab for Information Processing Technologies, Soochow University , Suzhou 215006, China","institution_ids":["https://openalex.org/I3923682"]},{"raw_affiliation_string":"School of Computer Science and Technology, Soochow University , Suzhou 215006, China","institution_ids":["https://openalex.org/I3923682"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052635755","display_name":"Yiting Zhou","orcid":"https://orcid.org/0000-0002-0999-3833"},"institutions":[{"id":"https://openalex.org/I3923682","display_name":"Soochow University","ror":"https://ror.org/05t8y2r12","country_code":"CN","type":"education","lineage":["https://openalex.org/I3923682"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yiting Zhou","raw_affiliation_strings":["School of Computer Science and Technology, Soochow University , Suzhou 215006, China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Soochow University , Suzhou 215006, China","institution_ids":["https://openalex.org/I3923682"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071538499","display_name":"Yelu Jiang","orcid":null},"institutions":[{"id":"https://openalex.org/I3923682","display_name":"Soochow University","ror":"https://ror.org/05t8y2r12","country_code":"CN","type":"education","lineage":["https://openalex.org/I3923682"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yelu Jiang","raw_affiliation_strings":["School of Computer Science and Technology, Soochow University , Suzhou 215006, China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Soochow University , Suzhou 215006, China","institution_ids":["https://openalex.org/I3923682"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070011755","display_name":"Kailong Li","orcid":"https://orcid.org/0000-0002-3311-5782"},"institutions":[{"id":"https://openalex.org/I3923682","display_name":"Soochow University","ror":"https://ror.org/05t8y2r12","country_code":"CN","type":"education","lineage":["https://openalex.org/I3923682"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Kailong Li","raw_affiliation_strings":["School of Computer Science and Technology, Soochow University , Suzhou 215006, China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Soochow University , Suzhou 215006, China","institution_ids":["https://openalex.org/I3923682"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5064852381","display_name":"Tingfang Wu","orcid":"https://orcid.org/0000-0001-8137-2436"},"institutions":[{"id":"https://openalex.org/I3923682","display_name":"Soochow University","ror":"https://ror.org/05t8y2r12","country_code":"CN","type":"education","lineage":["https://openalex.org/I3923682"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Tingfang Wu","raw_affiliation_strings":["Collaborative Innovation Center of Novel Software Technology and Industrialization , Nanjing 210000, China","Province Key Lab for Information Processing Technologies, Soochow University , Suzhou 215006, China","School of Computer Science and Technology, Soochow University , Suzhou 215006, China"],"affiliations":[{"raw_affiliation_string":"Collaborative Innovation Center of Novel Software Technology and Industrialization , Nanjing 210000, China","institution_ids":[]},{"raw_affiliation_string":"Province Key Lab for Information Processing Technologies, Soochow University , Suzhou 215006, China","institution_ids":["https://openalex.org/I3923682"]},{"raw_affiliation_string":"School of Computer Science and Technology, Soochow University , Suzhou 215006, China","institution_ids":["https://openalex.org/I3923682"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5061252858","display_name":"Qiang Lyu","orcid":"https://orcid.org/0000-0003-2371-835X"},"institutions":[{"id":"https://openalex.org/I3923682","display_name":"Soochow University","ror":"https://ror.org/05t8y2r12","country_code":"CN","type":"education","lineage":["https://openalex.org/I3923682"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Qiang Lyu","raw_affiliation_strings":["Collaborative Innovation Center of Novel Software Technology and Industrialization , Nanjing 210000, China","Province Key Lab for Information Processing Technologies, Soochow University , Suzhou 215006, China","School of Computer Science and Technology, Soochow University , Suzhou 215006, China"],"affiliations":[{"raw_affiliation_string":"Collaborative Innovation Center of Novel Software Technology and Industrialization , Nanjing 210000, China","institution_ids":[]},{"raw_affiliation_string":"Province Key Lab for Information Processing Technologies, Soochow University , Suzhou 215006, China","institution_ids":["https://openalex.org/I3923682"]},{"raw_affiliation_string":"School of Computer Science and Technology, Soochow University , Suzhou 215006, China","institution_ids":["https://openalex.org/I3923682"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5061252858"],"corresponding_institution_ids":["https://openalex.org/I3923682"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.9531,"has_fulltext":false,"cited_by_count":11,"citation_normalized_percentile":{"value":0.73010446,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":98},"biblio":{"volume":"38","issue":"17","first_page":"4070","last_page":"4077"},"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9997000098228455,"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":0.9976000189781189,"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/dna","display_name":"DNA","score":0.7103705406188965},{"id":"https://openalex.org/keywords/histone","display_name":"Histone","score":0.6706038117408752},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.6547808647155762},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5873422622680664},{"id":"https://openalex.org/keywords/joint","display_name":"Joint (building)","score":0.5816305875778198},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.5504950284957886},{"id":"https://openalex.org/keywords/dna-binding-site","display_name":"DNA binding site","score":0.5496073365211487},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4256329834461212},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3738153576850891},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3138127028942108},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.22842583060264587},{"id":"https://openalex.org/keywords/promoter","display_name":"Promoter","score":0.09076923131942749},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.07040771842002869}],"concepts":[{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.7103705406188965},{"id":"https://openalex.org/C64927066","wikidata":"https://www.wikidata.org/wiki/Q36293","display_name":"Histone","level":3,"score":0.6706038117408752},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.6547808647155762},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5873422622680664},{"id":"https://openalex.org/C18555067","wikidata":"https://www.wikidata.org/wiki/Q8375051","display_name":"Joint (building)","level":2,"score":0.5816305875778198},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.5504950284957886},{"id":"https://openalex.org/C3662595","wikidata":"https://www.wikidata.org/wiki/Q5205743","display_name":"DNA binding site","level":5,"score":0.5496073365211487},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4256329834461212},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3738153576850891},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3138127028942108},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.22842583060264587},{"id":"https://openalex.org/C101762097","wikidata":"https://www.wikidata.org/wiki/Q224093","display_name":"Promoter","level":4,"score":0.09076923131942749},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.07040771842002869},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0},{"id":"https://openalex.org/C170154142","wikidata":"https://www.wikidata.org/wiki/Q150737","display_name":"Architectural engineering","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"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":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btac489","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btac489","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:35809058","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35809058","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":"Bioinformatics (Oxford, England)","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G4447477790","display_name":null,"funder_award_id":"31801108","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G739727963","display_name":null,"funder_award_id":"62002251","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320327518","display_name":"Priority Academic Program Development of Jiangsu Higher Education Institutions","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":34,"referenced_works":["https://openalex.org/W1019830208","https://openalex.org/W1567904427","https://openalex.org/W1982881824","https://openalex.org/W1994590240","https://openalex.org/W1997260717","https://openalex.org/W1998518361","https://openalex.org/W2006131936","https://openalex.org/W2013845721","https://openalex.org/W2032794324","https://openalex.org/W2075907707","https://openalex.org/W2076154138","https://openalex.org/W2086088430","https://openalex.org/W2096083625","https://openalex.org/W2103410123","https://openalex.org/W2103777723","https://openalex.org/W2106157678","https://openalex.org/W2147524392","https://openalex.org/W2158714788","https://openalex.org/W2159453821","https://openalex.org/W2163046373","https://openalex.org/W2198606573","https://openalex.org/W2247766769","https://openalex.org/W2336509392","https://openalex.org/W2560113976","https://openalex.org/W2737196618","https://openalex.org/W2763198307","https://openalex.org/W2768128466","https://openalex.org/W2770178180","https://openalex.org/W2789960326","https://openalex.org/W2891494568","https://openalex.org/W2980972006","https://openalex.org/W3117490633","https://openalex.org/W6748526421","https://openalex.org/W6769399034"],"related_works":["https://openalex.org/W1996130883","https://openalex.org/W2748574964","https://openalex.org/W2888483922","https://openalex.org/W2367747139","https://openalex.org/W4391102217","https://openalex.org/W2566187525","https://openalex.org/W2416898748","https://openalex.org/W2367150592","https://openalex.org/W2083633292","https://openalex.org/W4361008758"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":2}],"updated_date":"2026-03-27T05:58:40.876381","created_date":"2025-10-10T00:00:00"}
