{"id":"https://openalex.org/W4412403789","doi":"https://doi.org/10.26599/bdma.2025.9020009","title":"A Flexible Data-Driven Framework for Correcting Coarsely Annotated scRNA-seq Data","display_name":"A Flexible Data-Driven Framework for Correcting Coarsely Annotated scRNA-seq Data","publication_year":2025,"publication_date":"2025-07-14","ids":{"openalex":"https://openalex.org/W4412403789","doi":"https://doi.org/10.26599/bdma.2025.9020009"},"language":"en","primary_location":{"id":"doi:10.26599/bdma.2025.9020009","is_oa":true,"landing_page_url":"https://doi.org/10.26599/bdma.2025.9020009","pdf_url":null,"source":{"id":"https://openalex.org/S4210209060","display_name":"Big Data Mining and Analytics","issn_l":"2096-0654","issn":["2096-0654"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311901","host_organization_name":"Tsinghua University Press","host_organization_lineage":["https://openalex.org/P4310311901"],"host_organization_lineage_names":["Tsinghua University Press"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Big Data Mining and Analytics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"diamond","oa_url":"https://doi.org/10.26599/bdma.2025.9020009","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5044328870","display_name":"Ruiqing Zheng","orcid":"https://orcid.org/0000-0001-6372-6798"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ruiqing Zheng","raw_affiliation_strings":["School of Computer Science and Engineering, Central South University,Changsha,China,410083"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University,Changsha,China,410083","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051288548","display_name":"Yongxin He","orcid":"https://orcid.org/0000-0002-3014-0798"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yongxin He","raw_affiliation_strings":["School of Computer Science and Engineering, Central South University,Changsha,China,410083"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University,Changsha,China,410083","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5104291496","display_name":"Jiawen Huang","orcid":null},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jiawen Huang","raw_affiliation_strings":["School of Computer Science and Engineering, Central South University,Changsha,China,410083"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University,Changsha,China,410083","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025341442","display_name":"Shichao Kan","orcid":"https://orcid.org/0000-0003-0097-6196"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shichao Kan","raw_affiliation_strings":["School of Computer Science and Engineering, Central South University,Changsha,China,410083"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University,Changsha,China,410083","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100460665","display_name":"Hui Wang","orcid":"https://orcid.org/0000-0001-5643-3014"},"institutions":[{"id":"https://openalex.org/I184843921","display_name":"Hebei University of Technology","ror":"https://ror.org/018hded08","country_code":"CN","type":"education","lineage":["https://openalex.org/I184843921"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hui Wang","raw_affiliation_strings":["Institute of Biophysics School of Health Sciences and Biomedical Engineering, Hebei University of Technology,Key Laboratory of Molecular Biophysics,Tianjin,Hebei Province,China,300401"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Biophysics School of Health Sciences and Biomedical Engineering, Hebei University of Technology,Key Laboratory of Molecular Biophysics,Tianjin,Hebei Province,China,300401","institution_ids":["https://openalex.org/I184843921"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075157579","display_name":"Edwin Wang","orcid":"https://orcid.org/0000-0001-8689-5295"},"institutions":[{"id":"https://openalex.org/I168635309","display_name":"University of Calgary","ror":"https://ror.org/03yjb2x39","country_code":"CA","type":"education","lineage":["https://openalex.org/I168635309"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Edwin Wang","raw_affiliation_strings":["Cumming School of Medicine, University of Calgary,Department of Biochemistry and Molecular Biology,Calgary,Canada,T2N 4N1"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Cumming School of Medicine, University of Calgary,Department of Biochemistry and Molecular Biology,Calgary,Canada,T2N 4N1","institution_ids":["https://openalex.org/I168635309"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100649030","display_name":"Min Li","orcid":"https://orcid.org/0000-0002-5657-8675"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Min Li","raw_affiliation_strings":["School of Computer Science and Engineering, Central South University,Changsha,China,410083"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University,Changsha,China,410083","institution_ids":["https://openalex.org/I139660479"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":7,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":1.1519,"has_fulltext":false,"cited_by_count":2,"citation_normalized_percentile":{"value":0.78530506,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":98,"max":99},"biblio":{"volume":"8","issue":"5","first_page":"997","last_page":"1010"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9887999892234802,"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":0.9887999892234802,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9442999958992004,"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/T11970","display_name":"Molecular Biology Techniques and Applications","score":0.9394000172615051,"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/computer-science","display_name":"Computer science","score":0.5128079056739807}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5128079056739807}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.26599/bdma.2025.9020009","is_oa":true,"landing_page_url":"https://doi.org/10.26599/bdma.2025.9020009","pdf_url":null,"source":{"id":"https://openalex.org/S4210209060","display_name":"Big Data Mining and Analytics","issn_l":"2096-0654","issn":["2096-0654"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311901","host_organization_name":"Tsinghua University Press","host_organization_lineage":["https://openalex.org/P4310311901"],"host_organization_lineage_names":["Tsinghua University Press"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Big Data Mining and Analytics","raw_type":"journal-article"},{"id":"pmh:oai:doaj.org/article:80c3150eb99e47f6b8ebc9ca98a1484d","is_oa":true,"landing_page_url":"https://doaj.org/article/80c3150eb99e47f6b8ebc9ca98a1484d","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Big Data Mining and Analytics, Vol 8, Iss 5, Pp 997-1010 (2025)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.26599/bdma.2025.9020009","is_oa":true,"landing_page_url":"https://doi.org/10.26599/bdma.2025.9020009","pdf_url":null,"source":{"id":"https://openalex.org/S4210209060","display_name":"Big Data Mining and Analytics","issn_l":"2096-0654","issn":["2096-0654"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311901","host_organization_name":"Tsinghua University Press","host_organization_lineage":["https://openalex.org/P4310311901"],"host_organization_lineage_names":["Tsinghua University Press"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Big Data Mining and Analytics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G6744175612","display_name":null,"funder_award_id":"62202503,62225209","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":49,"referenced_works":["https://openalex.org/W1523794535","https://openalex.org/W2088252378","https://openalex.org/W2102212449","https://openalex.org/W2113054345","https://openalex.org/W2131681506","https://openalex.org/W2148143831","https://openalex.org/W2473258837","https://openalex.org/W2523620612","https://openalex.org/W2526262591","https://openalex.org/W2616922646","https://openalex.org/W2752378502","https://openalex.org/W2773035279","https://openalex.org/W2773586544","https://openalex.org/W2800392236","https://openalex.org/W2801175520","https://openalex.org/W2805410771","https://openalex.org/W2884650026","https://openalex.org/W2887326710","https://openalex.org/W2894687190","https://openalex.org/W2897249806","https://openalex.org/W2918882492","https://openalex.org/W2937917790","https://openalex.org/W2953251392","https://openalex.org/W2963469388","https://openalex.org/W3017924613","https://openalex.org/W3022882652","https://openalex.org/W3029148360","https://openalex.org/W3035524453","https://openalex.org/W3096411814","https://openalex.org/W3136379023","https://openalex.org/W3145969289","https://openalex.org/W3208616437","https://openalex.org/W3216323060","https://openalex.org/W4205916264","https://openalex.org/W4285890828","https://openalex.org/W4288384188","https://openalex.org/W4295717668","https://openalex.org/W4311125341","https://openalex.org/W4318913348","https://openalex.org/W4362521490","https://openalex.org/W4364323134","https://openalex.org/W4385851326","https://openalex.org/W4390206253","https://openalex.org/W4390946179","https://openalex.org/W4392096685","https://openalex.org/W4400249174","https://openalex.org/W4400579193","https://openalex.org/W4404793799","https://openalex.org/W6748816842"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W4391913857","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W4396696052"],"abstract_inverted_index":{"Cells":[0],"are":[1,60],"the":[2,63,107,129,132,152,161],"fundamental":[3],"units":[4],"of":[5,24,51,65,131,137,155],"life":[6],"and":[7,14,22,67,101],"exhibit":[8],"significant":[9],"diversity":[10],"in":[11,71,73],"structure,":[12],"behavior,":[13],"function,":[15],"known":[16],"as":[17],"cell":[18,74,85],"heterogeneity.":[19,39],"The":[20,135],"advent":[21],"development":[23],"single-cell":[25],"RNA":[26],"sequencing":[27],"(scRNA-seq)":[28],"technology":[29],"have":[30],"provided":[31],"a":[32,48,82,97,113,119,123,168],"crucial":[33],"data":[34],"foundation":[35],"for":[36],"studying":[37],"cellular":[38],"Currently,":[40],"most":[41],"computational":[42],"methods":[43,59],"based":[44,88],"on":[45,89,146,151],"scRNA-seq":[46,92,148,156],"involve":[47],"sequential":[49],"process":[50],"clustering":[52,68,164],"followed":[53],"by":[54],"annotation.":[55,75],"However,":[56],"those":[57],"clustering-based":[58],"susceptible":[61],"to":[62,105,127,172],"selection":[64,103],"genes":[66],"parameters,":[69],"resulting":[70],"inaccuracies":[72],"To":[76],"address":[77],"this":[78,138],"issue,":[79],"we":[80,158],"develop":[81],"flexible":[83],"data-driven":[84],"correction":[86,139],"framework":[87,95,140],"partially":[90],"annotated":[91],"data.":[93],"This":[94],"employs":[96],"neighborhood":[98],"purity":[99],"strategy":[100],"global":[102],"strategies":[104],"select":[106],"anchor":[108],"cells.":[109,134],"Then,":[110],"it":[111],"optimizes":[112],"prediction":[114],"neural":[115],"network":[116],"model":[117],"using":[118],"classification":[120],"loss":[121],"with":[122],"contrastive":[124],"regularization":[125],"term":[126],"correct":[128,153],"labels":[130,154],"remaining":[133],"validity":[136],"is":[141],"demonstrated":[142],"through":[143],"various":[144],"assessments":[145],"real":[147],"datasets.":[149],"Based":[150],"data,":[157],"further":[159],"assess":[160],"latest":[162],"unsupervised":[163],"methods,":[165],"thereby":[166],"establishing":[167],"more":[169],"objective":[170],"benchmark":[171],"compare":[173],"their":[174],"performance.":[175]},"counts_by_year":[{"year":2026,"cited_by_count":2}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
