{"id":"https://openalex.org/W4407863440","doi":"https://doi.org/10.1093/bib/bbaf069","title":"DECA: harnessing interpretable transformer model for cellular deconvolution of chromatin accessibility profile","display_name":"DECA: harnessing interpretable transformer model for cellular deconvolution of chromatin accessibility profile","publication_year":2024,"publication_date":"2024-11-22","ids":{"openalex":"https://openalex.org/W4407863440","doi":"https://doi.org/10.1093/bib/bbaf069","pmid":"https://pubmed.ncbi.nlm.nih.gov/39987573"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbaf069","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf069","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","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1093/bib/bbaf069","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101827295","display_name":"Shijie Luo","orcid":"https://orcid.org/0000-0002-3540-1504"},"institutions":[{"id":"https://openalex.org/I191208505","display_name":"Xiamen University","ror":"https://ror.org/00mcjh785","country_code":"CN","type":"education","lineage":["https://openalex.org/I191208505"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Shijie Luo","raw_affiliation_strings":["National Institute for Data Science in Health and Medicine, Xiamen University , No. 4221, Xiang'an South Road, Xiamen, Fujian 361102 ,","State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Faculty of Medicine and Life Sciences, Xiamen University , No. 4221, Xiang'an South Road, Xiamen, Fujian 361102 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Institute for Data Science in Health and Medicine, Xiamen University , No. 4221, Xiang'an South Road, Xiamen, Fujian 361102 ,","institution_ids":["https://openalex.org/I191208505"]},{"raw_affiliation_string":"State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Faculty of Medicine and Life Sciences, Xiamen University , No. 4221, Xiang'an South Road, Xiamen, Fujian 361102 ,","institution_ids":["https://openalex.org/I191208505"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101484571","display_name":"Ming Zhu","orcid":"https://orcid.org/0000-0003-0107-2893"},"institutions":[{"id":"https://openalex.org/I191208505","display_name":"Xiamen University","ror":"https://ror.org/00mcjh785","country_code":"CN","type":"education","lineage":["https://openalex.org/I191208505"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ming Zhu","raw_affiliation_strings":["State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Faculty of Medicine and Life Sciences, Xiamen University , No. 4221, Xiang'an South Road, Xiamen, Fujian 361102 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Faculty of Medicine and Life Sciences, Xiamen University , No. 4221, Xiang'an South Road, Xiamen, Fujian 361102 ,","institution_ids":["https://openalex.org/I191208505"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5059497632","display_name":"Liquan Lin","orcid":"https://orcid.org/0000-0002-6013-4380"},"institutions":[{"id":"https://openalex.org/I191208505","display_name":"Xiamen University","ror":"https://ror.org/00mcjh785","country_code":"CN","type":"education","lineage":["https://openalex.org/I191208505"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Liquan Lin","raw_affiliation_strings":["State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Faculty of Medicine and Life Sciences, Xiamen University , No. 4221, Xiang'an South Road, Xiamen, Fujian 361102 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Faculty of Medicine and Life Sciences, Xiamen University , No. 4221, Xiang'an South Road, Xiamen, Fujian 361102 ,","institution_ids":["https://openalex.org/I191208505"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030762640","display_name":"Jiajing Xie","orcid":"https://orcid.org/0009-0004-0853-5859"},"institutions":[{"id":"https://openalex.org/I191208505","display_name":"Xiamen University","ror":"https://ror.org/00mcjh785","country_code":"CN","type":"education","lineage":["https://openalex.org/I191208505"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jiajing Xie","raw_affiliation_strings":["National Institute for Data Science in Health and Medicine, Xiamen University , No. 4221, Xiang'an South Road, Xiamen, Fujian 361102 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Institute for Data Science in Health and Medicine, Xiamen University , No. 4221, Xiang'an South Road, Xiamen, Fujian 361102 ,","institution_ids":["https://openalex.org/I191208505"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061957103","display_name":"Shihao Lin","orcid":null},"institutions":[{"id":"https://openalex.org/I191208505","display_name":"Xiamen University","ror":"https://ror.org/00mcjh785","country_code":"CN","type":"education","lineage":["https://openalex.org/I191208505"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shihao Lin","raw_affiliation_strings":["State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Faculty of Medicine and Life Sciences, Xiamen University , No. 4221, Xiang'an South Road, Xiamen, Fujian 361102 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Faculty of Medicine and Life Sciences, Xiamen University , No. 4221, Xiang'an South Road, Xiamen, Fujian 361102 ,","institution_ids":["https://openalex.org/I191208505"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100382998","display_name":"Ying Chen","orcid":"https://orcid.org/0000-0001-6109-4184"},"institutions":[{"id":"https://openalex.org/I191208505","display_name":"Xiamen University","ror":"https://ror.org/00mcjh785","country_code":"CN","type":"education","lineage":["https://openalex.org/I191208505"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ying Chen","raw_affiliation_strings":["School of Informatics, Xiamen University , No. 4221, Xiang'an South Road, Fujian 361000 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Informatics, Xiamen University , No. 4221, Xiang'an South Road, Fujian 361000 ,","institution_ids":["https://openalex.org/I191208505"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101878654","display_name":"Jiali Zhu","orcid":"https://orcid.org/0000-0003-1541-3193"},"institutions":[{"id":"https://openalex.org/I191208505","display_name":"Xiamen University","ror":"https://ror.org/00mcjh785","country_code":"CN","type":"education","lineage":["https://openalex.org/I191208505"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jiali Zhu","raw_affiliation_strings":["State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Faculty of Medicine and Life Sciences, Xiamen University , No. 4221, Xiang'an South Road, Xiamen, Fujian 361102 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Faculty of Medicine and Life Sciences, Xiamen University , No. 4221, Xiang'an South Road, Xiamen, Fujian 361102 ,","institution_ids":["https://openalex.org/I191208505"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5044939327","display_name":"Jialiang Huang","orcid":"https://orcid.org/0000-0002-5218-1144"},"institutions":[{"id":"https://openalex.org/I191208505","display_name":"Xiamen University","ror":"https://ror.org/00mcjh785","country_code":"CN","type":"education","lineage":["https://openalex.org/I191208505"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jialiang Huang","raw_affiliation_strings":["National Institute for Data Science in Health and Medicine, Xiamen University , No. 4221, Xiang'an South Road, Xiamen, Fujian 361102 ,","State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Faculty of Medicine and Life Sciences, Xiamen University , No. 4221, Xiang'an South Road, Xiamen, Fujian 361102 ,"],"raw_orcid":"https://orcid.org/0000-0002-5218-1144","affiliations":[{"raw_affiliation_string":"National Institute for Data Science in Health and Medicine, Xiamen University , No. 4221, Xiang'an South Road, Xiamen, Fujian 361102 ,","institution_ids":["https://openalex.org/I191208505"]},{"raw_affiliation_string":"State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Faculty of Medicine and Life Sciences, Xiamen University , No. 4221, Xiang'an South Road, Xiamen, Fujian 361102 ,","institution_ids":["https://openalex.org/I191208505"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5101827295"],"corresponding_institution_ids":["https://openalex.org/I191208505"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":0.4254,"has_fulltext":false,"cited_by_count":2,"citation_normalized_percentile":{"value":0.65465802,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":95,"max":96},"biblio":{"volume":"26","issue":"1","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","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/T11289","display_name":"Single-cell and spatial transcriptomics","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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9995999932289124,"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/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.9991999864578247,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/chromatin","display_name":"Chromatin","score":0.9174058437347412},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.620368480682373},{"id":"https://openalex.org/keywords/deconvolution","display_name":"Deconvolution","score":0.5640335083007812},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5014429092407227},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3698781728744507},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3174320459365845},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.31562018394470215},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.12472867965698242}],"concepts":[{"id":"https://openalex.org/C83640560","wikidata":"https://www.wikidata.org/wiki/Q180951","display_name":"Chromatin","level":3,"score":0.9174058437347412},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.620368480682373},{"id":"https://openalex.org/C174576160","wikidata":"https://www.wikidata.org/wiki/Q1183700","display_name":"Deconvolution","level":2,"score":0.5640335083007812},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5014429092407227},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3698781728744507},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3174320459365845},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.31562018394470215},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.12472867965698242}],"mesh":[{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"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":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000081204","descriptor_name":"Chromatin Immunoprecipitation Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000081204","descriptor_name":"Chromatin Immunoprecipitation Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000081204","descriptor_name":"Chromatin Immunoprecipitation Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D000081204","descriptor_name":"Chromatin Immunoprecipitation Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","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":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"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":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":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbaf069","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf069","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","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:39987573","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39987573","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:11847511","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11847511","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbaf069","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf069","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","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.44999998807907104,"display_name":"Partnerships for the goals","id":"https://metadata.un.org/sdg/17"}],"awards":[{"id":"https://openalex.org/G1089011795","display_name":null,"funder_award_id":"32370586","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G1212913895","display_name":null,"funder_award_id":"2023YFC2508100","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"},{"id":"https://openalex.org/G2386072568","display_name":null,"funder_award_id":"20720230068","funder_id":"https://openalex.org/F4320335787","funder_display_name":"Fundamental Research Funds for the Central Universities"},{"id":"https://openalex.org/G6492551579","display_name":null,"funder_award_id":"32070635","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7567878960","display_name":null,"funder_award_id":"92474104","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/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}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":62,"referenced_works":["https://openalex.org/W1973062929","https://openalex.org/W1985987855","https://openalex.org/W2004966039","https://openalex.org/W2056482755","https://openalex.org/W2070021921","https://openalex.org/W2108747515","https://openalex.org/W2117600467","https://openalex.org/W2117757143","https://openalex.org/W2157576490","https://openalex.org/W2162940287","https://openalex.org/W2168793898","https://openalex.org/W2170551349","https://openalex.org/W2171808845","https://openalex.org/W2514448720","https://openalex.org/W2788357641","https://openalex.org/W2797421660","https://openalex.org/W2887694579","https://openalex.org/W2887910040","https://openalex.org/W2898215009","https://openalex.org/W2911555896","https://openalex.org/W2934716754","https://openalex.org/W2941888634","https://openalex.org/W2942610007","https://openalex.org/W2952336494","https://openalex.org/W2953866345","https://openalex.org/W2965985232","https://openalex.org/W2977079874","https://openalex.org/W2989061519","https://openalex.org/W2991023348","https://openalex.org/W3019556496","https://openalex.org/W3034491533","https://openalex.org/W3035965352","https://openalex.org/W3037346840","https://openalex.org/W3093674228","https://openalex.org/W3094502228","https://openalex.org/W3096486123","https://openalex.org/W3099878876","https://openalex.org/W3131634425","https://openalex.org/W3134032522","https://openalex.org/W3158914043","https://openalex.org/W3214158901","https://openalex.org/W4206751313","https://openalex.org/W4223893712","https://openalex.org/W4225108987","https://openalex.org/W4225323141","https://openalex.org/W4308589388","https://openalex.org/W4312140977","https://openalex.org/W4321853850","https://openalex.org/W4362523594","https://openalex.org/W4377293234","https://openalex.org/W4385812770","https://openalex.org/W4385876382","https://openalex.org/W4386801555","https://openalex.org/W4388141911","https://openalex.org/W4388282762","https://openalex.org/W4390636271","https://openalex.org/W4391818181","https://openalex.org/W4391988543","https://openalex.org/W4399735300","https://openalex.org/W6684458083","https://openalex.org/W6755490478","https://openalex.org/W6784333009"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W4250106855","https://openalex.org/W2037261263","https://openalex.org/W3149087629","https://openalex.org/W4231036715","https://openalex.org/W2032074591","https://openalex.org/W1986156575","https://openalex.org/W2034625591","https://openalex.org/W4225831698","https://openalex.org/W3198436517"],"abstract_inverted_index":{"The":[0,99],"assay":[1],"for":[2,15,67],"transposase-accessible":[3],"chromatin":[4,9,58,83,100,142,147],"with":[5,82,108,130],"sequencing":[6],"(ATAC-seq)":[7],"identifies":[8],"accessibility":[10,59,101,143,148],"across":[11],"the":[12,153],"genome,":[13],"crucial":[14],"gene":[16,154],"expression":[17],"regulating.":[18],"However,":[19],"bulk":[20,57,146],"ATAC-seq":[21,27,63,119],"obscures":[22],"cellular":[23,137],"heterogeneity,":[24],"while":[25],"single-cell":[26,62],"suffers":[28],"from":[29,56,145],"issues":[30],"such":[31],"as":[32,65],"sparsity":[33],"and":[34,70,121,139,159],"costliness.":[35],"To":[36],"this":[37],"end,":[38],"we":[39,114],"introduce":[40],"DECA,":[41],"a":[42],"sophisticated":[43],"deep":[44],"learning":[45],"model":[46],"based":[47],"on":[48,117],"vision":[49],"transformer":[50],"to":[51,96,125],"deconvolve":[52,126],"cell":[53,92,127],"type":[54,128],"information":[55],"profiles,":[60],"utilizing":[61],"datasets":[64,120],"reference":[66],"enhanced":[68],"precision":[69],"resolution.":[71],"Notably,":[72],"patch":[73],"attention":[74,79],"generated":[75],"by":[76,86,104],"DECA's":[77],"multi-head":[78],"mechanism":[80],"aligns":[81],"interactions":[84],"detected":[85],"Hi-C.":[87],"Additionally,":[88],"DECA":[89,105,116,135],"predicted":[90,103],"lineage-specific":[91],"composition":[93],"changes":[94],"due":[95],"genetic":[97,111],"perturbation.":[98],"signatures":[102],"are":[106],"enriched":[107],"cell-type":[109],"specific":[110],"variations.":[112],"Ultimately,":[113],"applied":[115],"pan-cancer":[118],"demonstrated":[122],"its":[123],"capability":[124],"proportions":[129,138],"clinical":[131],"significance.":[132],"Taken":[133],"together,":[134],"deconvolves":[136],"predicts":[140],"their":[141],"profiles":[144],"data,":[149],"which":[150],"enable":[151],"exploring":[152],"regulatory":[155],"programs":[156],"in":[157],"development":[158],"diseases.":[160]},"counts_by_year":[{"year":2025,"cited_by_count":2}],"updated_date":"2026-05-20T08:49:12.498775","created_date":"2025-10-10T00:00:00"}
