{"id":"https://openalex.org/W4417095454","doi":"https://doi.org/10.1186/s12859-025-06329-4","title":"A DSSM network for inferring and prioritizing cell-type-specific regulons using single-cell RNA-seq data","display_name":"A DSSM network for inferring and prioritizing cell-type-specific regulons using single-cell RNA-seq data","publication_year":2025,"publication_date":"2025-12-07","ids":{"openalex":"https://openalex.org/W4417095454","doi":"https://doi.org/10.1186/s12859-025-06329-4","pmid":"https://pubmed.ncbi.nlm.nih.gov/41354912"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-025-06329-4","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-025-06329-4","pdf_url":null,"source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC 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/10.1186/s12859-025-06329-4","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101755685","display_name":"Yaxin Fan","orcid":"https://orcid.org/0000-0002-1403-8072"},"institutions":[{"id":"https://openalex.org/I204823248","display_name":"Huazhong Agricultural University","ror":"https://ror.org/023b72294","country_code":"CN","type":"education","lineage":["https://openalex.org/I204823248"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Yaxin Fan","raw_affiliation_strings":["Hubei Key Laboratory of Agricultural Bioinformatics, College of Informatics, Huazhong Agricultural University, Wuhan, 430070, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Hubei Key Laboratory of Agricultural Bioinformatics, College of Informatics, Huazhong Agricultural University, Wuhan, 430070, China","institution_ids":["https://openalex.org/I204823248"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101305367","display_name":"Yichao Mei","orcid":null},"institutions":[{"id":"https://openalex.org/I204823248","display_name":"Huazhong Agricultural University","ror":"https://ror.org/023b72294","country_code":"CN","type":"education","lineage":["https://openalex.org/I204823248"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yichao Mei","raw_affiliation_strings":["Hubei Key Laboratory of Agricultural Bioinformatics, College of Informatics, Huazhong Agricultural University, Wuhan, 430070, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Hubei Key Laboratory of Agricultural Bioinformatics, College of Informatics, Huazhong Agricultural University, Wuhan, 430070, China","institution_ids":["https://openalex.org/I204823248"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Shengbao Bao","orcid":null},"institutions":[{"id":"https://openalex.org/I204823248","display_name":"Huazhong Agricultural University","ror":"https://ror.org/023b72294","country_code":"CN","type":"education","lineage":["https://openalex.org/I204823248"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shengbao Bao","raw_affiliation_strings":["Hubei Key Laboratory of Agricultural Bioinformatics, College of Informatics, Huazhong Agricultural University, Wuhan, 430070, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Hubei Key Laboratory of Agricultural Bioinformatics, College of Informatics, Huazhong Agricultural University, Wuhan, 430070, China","institution_ids":["https://openalex.org/I204823248"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100630866","display_name":"Jianyong Wang","orcid":"https://orcid.org/0000-0002-4049-1110"},"institutions":[{"id":"https://openalex.org/I204823248","display_name":"Huazhong Agricultural University","ror":"https://ror.org/023b72294","country_code":"CN","type":"education","lineage":["https://openalex.org/I204823248"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jianyong Wang","raw_affiliation_strings":["Hubei Key Laboratory of Agricultural Bioinformatics, College of Informatics, Huazhong Agricultural University, Wuhan, 430070, China. wjy01@mail.hzau.edu.cn","Hubei Key Laboratory of Agricultural Bioinformatics, College of Informatics, Huazhong Agricultural University, Wuhan, 430070, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Hubei Key Laboratory of Agricultural Bioinformatics, College of Informatics, Huazhong Agricultural University, Wuhan, 430070, China. wjy01@mail.hzau.edu.cn","institution_ids":["https://openalex.org/I204823248"]},{"raw_affiliation_string":"Hubei Key Laboratory of Agricultural Bioinformatics, College of Informatics, Huazhong Agricultural University, Wuhan, 430070, China","institution_ids":["https://openalex.org/I204823248"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5050276973","display_name":"Junxiang Gao","orcid":"https://orcid.org/0000-0002-8211-9034"},"institutions":[{"id":"https://openalex.org/I204823248","display_name":"Huazhong Agricultural University","ror":"https://ror.org/023b72294","country_code":"CN","type":"education","lineage":["https://openalex.org/I204823248"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Junxiang Gao","raw_affiliation_strings":["Hubei Key Laboratory of Agricultural Bioinformatics, College of Informatics, Huazhong Agricultural University, Wuhan, 430070, China. gao200@mail.hzau.edu.cn","Hubei Key Laboratory of Agricultural Bioinformatics, College of Informatics, Huazhong Agricultural University, Wuhan, 430070, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Hubei Key Laboratory of Agricultural Bioinformatics, College of Informatics, Huazhong Agricultural University, Wuhan, 430070, China. gao200@mail.hzau.edu.cn","institution_ids":["https://openalex.org/I204823248"]},{"raw_affiliation_string":"Hubei Key Laboratory of Agricultural Bioinformatics, College of Informatics, Huazhong Agricultural University, Wuhan, 430070, China","institution_ids":["https://openalex.org/I204823248"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5101755685"],"corresponding_institution_ids":["https://openalex.org/I204823248"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.33008324,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"27","issue":"1","first_page":"8","last_page":"8"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9945999979972839,"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":0.9945999979972839,"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":0.0012000000569969416,"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"}},{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.0006000000284984708,"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/regulon","display_name":"Regulon","score":0.8604000210762024},{"id":"https://openalex.org/keywords/inference","display_name":"Inference","score":0.66839998960495},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.542900025844574},{"id":"https://openalex.org/keywords/code","display_name":"Code (set theory)","score":0.4876999855041504},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.36230000853538513},{"id":"https://openalex.org/keywords/statistical-analysis","display_name":"Statistical analysis","score":0.27379998564720154}],"concepts":[{"id":"https://openalex.org/C62361671","wikidata":"https://www.wikidata.org/wiki/Q1754612","display_name":"Regulon","level":4,"score":0.8604000210762024},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7055000066757202},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.66839998960495},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5796999931335449},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.542900025844574},{"id":"https://openalex.org/C2776760102","wikidata":"https://www.wikidata.org/wiki/Q5139990","display_name":"Code (set theory)","level":3,"score":0.4876999855041504},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.3896999955177307},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.36230000853538513},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3118000030517578},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.30959999561309814},{"id":"https://openalex.org/C2986587452","wikidata":"https://www.wikidata.org/wiki/Q938438","display_name":"Statistical analysis","level":2,"score":0.27379998564720154},{"id":"https://openalex.org/C67186912","wikidata":"https://www.wikidata.org/wiki/Q367664","display_name":"Data modeling","level":2,"score":0.26910001039505005},{"id":"https://openalex.org/C134261354","wikidata":"https://www.wikidata.org/wiki/Q938438","display_name":"Statistical inference","level":2,"score":0.2687999904155731},{"id":"https://openalex.org/C162319229","wikidata":"https://www.wikidata.org/wiki/Q175263","display_name":"Data structure","level":2,"score":0.2515000104904175}],"mesh":[{"descriptor_ui":"D000081246","descriptor_name":"RNA-Seq","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000081246","descriptor_name":"RNA-Seq","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000081246","descriptor_name":"RNA-Seq","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000092386","descriptor_name":"Single-Cell Gene Expression Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000092386","descriptor_name":"Single-Cell Gene Expression Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000092386","descriptor_name":"Single-Cell Gene Expression Analysis","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":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000235","qualifier_name":"genetics","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},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-025-06329-4","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-025-06329-4","pdf_url":null,"source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:41354912","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/41354912","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:394d309c2acc4656af29bb13e8559799","is_oa":true,"landing_page_url":"https://doaj.org/article/394d309c2acc4656af29bb13e8559799","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 27, Iss 1, Pp 1-21 (2025)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:12798040","is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC12798040/","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":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-025-06329-4","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-025-06329-4","pdf_url":null,"source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1770815795","display_name":null,"funder_award_id":"2019CFA014","funder_id":"https://openalex.org/F4320322186","funder_display_name":"Natural Science Foundation of Hubei Province"}],"funders":[{"id":"https://openalex.org/F4320322186","display_name":"Natural Science Foundation of Hubei Province","ror":null}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":62,"referenced_works":["https://openalex.org/W1837330558","https://openalex.org/W1966327575","https://openalex.org/W1973670358","https://openalex.org/W1974693432","https://openalex.org/W1992714205","https://openalex.org/W2069089843","https://openalex.org/W2136189984","https://openalex.org/W2142890842","https://openalex.org/W2150612336","https://openalex.org/W2154024738","https://openalex.org/W2295275561","https://openalex.org/W2373831850","https://openalex.org/W2410378998","https://openalex.org/W2508682760","https://openalex.org/W2512971201","https://openalex.org/W2544405043","https://openalex.org/W2611754112","https://openalex.org/W2616246685","https://openalex.org/W2616922646","https://openalex.org/W2757234574","https://openalex.org/W2789515459","https://openalex.org/W2792693509","https://openalex.org/W2809644070","https://openalex.org/W2952535935","https://openalex.org/W2952631022","https://openalex.org/W2959566316","https://openalex.org/W2975363614","https://openalex.org/W2982699231","https://openalex.org/W2996140569","https://openalex.org/W2997831639","https://openalex.org/W3005064662","https://openalex.org/W3034036292","https://openalex.org/W3037908423","https://openalex.org/W3045696640","https://openalex.org/W3080500495","https://openalex.org/W3087657487","https://openalex.org/W3104129405","https://openalex.org/W3114034231","https://openalex.org/W3115426419","https://openalex.org/W3123988232","https://openalex.org/W3124714540","https://openalex.org/W3158032354","https://openalex.org/W3160679497","https://openalex.org/W3186348651","https://openalex.org/W3186939347","https://openalex.org/W3192883957","https://openalex.org/W4206804332","https://openalex.org/W4220899795","https://openalex.org/W4283766718","https://openalex.org/W4292295047","https://openalex.org/W4293723927","https://openalex.org/W4307432965","https://openalex.org/W4307543296","https://openalex.org/W4307969384","https://openalex.org/W4312431181","https://openalex.org/W4318478110","https://openalex.org/W4382022265","https://openalex.org/W4388667244","https://openalex.org/W4391100251","https://openalex.org/W4393391123","https://openalex.org/W4396659238","https://openalex.org/W4400682092"],"related_works":[],"abstract_inverted_index":{"BACKGROUND:":[0],"Transcription":[1],"factors":[2,77,102],"and":[3,31,42,59,69,78,103,111,164,181],"their":[4,44,108],"target":[5,79,104],"genes":[6,80,105],"form":[7],"regulatory":[8,109,144],"modules":[9],"known":[10],"as":[11],"regulons,":[12],"which":[13],"exhibit":[14],"significant":[15,198],"specificity":[16],"across":[17],"various":[18],"cell":[19,134,152],"types.":[20],"The":[21,93,201],"integration":[22],"of":[23,90,130,177,204],"single-cell":[24,67],"transcriptome":[25,68],"data,":[26,30],"transcription":[27,70,76,101],"factor":[28,71],"motif":[29,72],"ChIP-seq":[32],"data":[33,73,149,176],"presents":[34,51],"a":[35,52,82],"challenging":[36],"task":[37],"in":[38,87],"identifying":[39],"cell-type-specific":[40,61,114,172],"regulons":[41,115,131,173,192],"examining":[43],"activities.":[45],"RESULTS:":[46],"In":[47],"response,":[48],"this":[49,118],"study":[50],"Deep":[53],"Structured":[54],"Semantic":[55],"Model":[56],"for":[57,132,161],"inferring":[58],"prioritizing":[60],"Regulons":[62],"(DSSMReg).":[63],"This":[64],"approach":[65],"utilizes":[66],"to":[74,106,126,170],"map":[75],"into":[81],"low-dimensional":[83],"semantic":[84],"space,":[85],"resulting":[86],"the":[88,97,123,128,157],"generation":[89],"feature":[91],"vectors.":[92],"model":[94],"then":[95],"computes":[96],"cosine":[98],"similarity":[99],"between":[100],"evaluate":[107],"strength":[110],"subsequently":[112],"infers":[113],"based":[116],"on":[117],"assessment.":[119],"Moreover,":[120],"DSSMReg":[121,139,155,169,205],"employs":[122],"AUCell":[124,195],"algorithm":[125],"rank":[127],"importance":[129],"each":[133],"type.":[135],"CONCLUSIONS:":[136],"We":[137],"compared":[138],"against":[140],"five":[141,151],"representative":[142],"gene":[143],"inference":[145],"algorithms":[146],"using":[147],"scRNA-seq":[148,175],"from":[150,174],"lines,":[153],"with":[154,193],"achieving":[156],"highest":[158],"evaluation":[159],"metrics":[160],"both":[162],"AUROC":[163],"AUPRC.":[165],"Furthermore,":[166],"we":[167],"applied":[168],"infer":[171],"triple-negative":[178],"breast":[179],"cancer":[180],"human":[182],"bone":[183],"marrow":[184],"hematopoietic":[185],"stem":[186],"cells.":[187],"Our":[188],"results":[189],"indicated":[190],"that":[191],"high":[194],"scores":[196],"possess":[197],"biological":[199],"relevance.":[200],"source":[202],"code":[203],"is":[206],"freely":[207],"available":[208],"at":[209],"https://github.com/YaxinF/DSSMReg":[210],".":[211]},"counts_by_year":[],"updated_date":"2026-04-28T14:05:53.105641","created_date":"2025-12-07T00:00:00"}
