{"id":"https://openalex.org/W4411709724","doi":"https://doi.org/10.1038/s43588-025-00824-7","title":"Quantifying batch effects for individual genes in single-cell data","display_name":"Quantifying batch effects for individual genes in single-cell data","publication_year":2025,"publication_date":"2025-06-27","ids":{"openalex":"https://openalex.org/W4411709724","doi":"https://doi.org/10.1038/s43588-025-00824-7","pmid":"https://pubmed.ncbi.nlm.nih.gov/40579473"},"language":"en","primary_location":{"id":"doi:10.1038/s43588-025-00824-7","is_oa":false,"landing_page_url":"https://doi.org/10.1038/s43588-025-00824-7","pdf_url":null,"source":{"id":"https://openalex.org/S4210228084","display_name":"Nature Computational Science","issn_l":"2662-8457","issn":["2662-8457"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319908","host_organization_name":"Nature Portfolio","host_organization_lineage":["https://openalex.org/P4310319908","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Nature Portfolio","Springer Nature"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nature Computational Science","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","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/A5037563360","display_name":"Yang Zhou","orcid":"https://orcid.org/0000-0002-0126-9066"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yang Zhou","raw_affiliation_strings":["School of Mathematics, Harbin Institute of Technology, Harbin, China","Zhengzhou Research Institute, Harbin Institute of Technology, Zhengzhou, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Mathematics, Harbin Institute of Technology, Harbin, China","institution_ids":["https://openalex.org/I204983213"]},{"raw_affiliation_string":"Zhengzhou Research Institute, Harbin Institute of Technology, Zhengzhou, China","institution_ids":["https://openalex.org/I204983213"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013225480","display_name":"Qiongyu Sheng","orcid":null},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qiongyu Sheng","raw_affiliation_strings":["School of Mathematics, Harbin Institute of Technology, Harbin, China","Zhengzhou Research Institute, Harbin Institute of Technology, Zhengzhou, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Mathematics, Harbin Institute of Technology, Harbin, China","institution_ids":["https://openalex.org/I204983213"]},{"raw_affiliation_string":"Zhengzhou Research Institute, Harbin Institute of Technology, Zhengzhou, China","institution_ids":["https://openalex.org/I204983213"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100649978","display_name":"Guohua Wang","orcid":"https://orcid.org/0000-0001-7381-2374"},"institutions":[{"id":"https://openalex.org/I47689461","display_name":"Northeast Forestry University","ror":"https://ror.org/02yxnh564","country_code":"CN","type":"education","lineage":["https://openalex.org/I47689461"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Guohua Wang","raw_affiliation_strings":["College of Computer and Control Engineering, Northeast Forestry University, Harbin, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer and Control Engineering, Northeast Forestry University, Harbin, China","institution_ids":["https://openalex.org/I47689461"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073263476","display_name":"Li Xu","orcid":"https://orcid.org/0000-0003-4950-0789"},"institutions":[{"id":"https://openalex.org/I100188998","display_name":"Harbin University of Science and Technology","ror":"https://ror.org/04e6y1282","country_code":"CN","type":"education","lineage":["https://openalex.org/I100188998"]},{"id":"https://openalex.org/I1308199089","display_name":"Harbin University","ror":"https://ror.org/00ey9xa07","country_code":"CN","type":"education","lineage":["https://openalex.org/I1308199089"]},{"id":"https://openalex.org/I151727225","display_name":"Harbin Engineering University","ror":"https://ror.org/03x80pn82","country_code":"CN","type":"education","lineage":["https://openalex.org/I151727225"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Li Xu","raw_affiliation_strings":["College of Computer Science and Technology, Harbin Engineering University, Harbin, China. xuli@hrbeu.edu.cn"],"raw_orcid":"https://orcid.org/0000-0003-4950-0789","affiliations":[{"raw_affiliation_string":"College of Computer Science and Technology, Harbin Engineering University, Harbin, China. xuli@hrbeu.edu.cn","institution_ids":["https://openalex.org/I151727225","https://openalex.org/I1308199089","https://openalex.org/I100188998"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5028001686","display_name":"Shuilin Jin","orcid":"https://orcid.org/0000-0002-2318-432X"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Shuilin Jin","raw_affiliation_strings":["School of Mathematics, Harbin Institute of Technology, Harbin, China. jinsl@hit.edu.cn","Zhengzhou Research Institute, Harbin Institute of Technology, Zhengzhou, China. jinsl@hit.edu.cn"],"raw_orcid":"https://orcid.org/0000-0002-2318-432X","affiliations":[{"raw_affiliation_string":"School of Mathematics, Harbin Institute of Technology, Harbin, China. jinsl@hit.edu.cn","institution_ids":["https://openalex.org/I204983213"]},{"raw_affiliation_string":"Zhengzhou Research Institute, Harbin Institute of Technology, Zhengzhou, China. jinsl@hit.edu.cn","institution_ids":["https://openalex.org/I204983213"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5028001686","https://openalex.org/A5073263476"],"corresponding_institution_ids":["https://openalex.org/I100188998","https://openalex.org/I1308199089","https://openalex.org/I151727225","https://openalex.org/I204983213"],"apc_list":{"value":9750,"currency":"EUR","value_usd":11690},"apc_paid":null,"fwci":3.0444,"has_fulltext":false,"cited_by_count":7,"citation_normalized_percentile":{"value":0.91739785,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":91,"max":100},"biblio":{"volume":"5","issue":"8","first_page":"612","last_page":"620"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":1.0,"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":1.0,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9639999866485596,"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":0.9531000256538391,"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/gene","display_name":"Gene","score":0.5384134650230408},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4270632266998291},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.37933236360549927},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3619680404663086}],"concepts":[{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5384134650230408},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4270632266998291},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.37933236360549927},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3619680404663086}],"mesh":[{"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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","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":"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":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":true},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":true},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":true},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":true},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1038/s43588-025-00824-7","is_oa":false,"landing_page_url":"https://doi.org/10.1038/s43588-025-00824-7","pdf_url":null,"source":{"id":"https://openalex.org/S4210228084","display_name":"Nature Computational Science","issn_l":"2662-8457","issn":["2662-8457"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319908","host_organization_name":"Nature Portfolio","host_organization_lineage":["https://openalex.org/P4310319908","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Nature Portfolio","Springer Nature"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nature Computational Science","raw_type":"journal-article"},{"id":"pmid:40579473","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40579473","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":"Nature computational science","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2173402669","display_name":null,"funder_award_id":"No. 124B2027","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2914502512","display_name":null,"funder_award_id":"No. 62172122","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5506862894","display_name":null,"funder_award_id":"No. 62271173","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5727642837","display_name":null,"funder_award_id":"No. JQ2023A003","funder_id":"https://openalex.org/F4320323085","funder_display_name":"Natural Science Foundation of Heilongjiang Province"}],"funders":[{"id":"https://openalex.org/F4320317323","display_name":"Key Research and Development Program of Heilongjiang","ror":null},{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320323085","display_name":"Natural Science Foundation of Heilongjiang Province","ror":null},{"id":"https://openalex.org/F4320335787","display_name":"Fundamental Research Funds for the Central Universities","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":48,"referenced_works":["https://openalex.org/W2013444425","https://openalex.org/W2029276959","https://openalex.org/W2030165415","https://openalex.org/W2035618305","https://openalex.org/W2096192437","https://openalex.org/W2107665951","https://openalex.org/W2286142055","https://openalex.org/W2774307122","https://openalex.org/W2794480084","https://openalex.org/W2794521141","https://openalex.org/W2887910040","https://openalex.org/W2898824002","https://openalex.org/W2901677030","https://openalex.org/W2902652978","https://openalex.org/W2905317377","https://openalex.org/W2949067670","https://openalex.org/W2949177718","https://openalex.org/W2949237386","https://openalex.org/W2951158909","https://openalex.org/W2984472267","https://openalex.org/W3028994743","https://openalex.org/W3103853875","https://openalex.org/W3113088581","https://openalex.org/W3121168830","https://openalex.org/W3126492421","https://openalex.org/W3133082627","https://openalex.org/W3136036731","https://openalex.org/W3159591806","https://openalex.org/W3164692211","https://openalex.org/W3164839005","https://openalex.org/W3202498768","https://openalex.org/W3212861512","https://openalex.org/W4200428700","https://openalex.org/W4225598893","https://openalex.org/W4256083073","https://openalex.org/W4285388424","https://openalex.org/W4296039169","https://openalex.org/W4310986751","https://openalex.org/W4312067196","https://openalex.org/W4312201951","https://openalex.org/W4387451658","https://openalex.org/W4393711739","https://openalex.org/W4404793799","https://openalex.org/W6755861362","https://openalex.org/W6784195601","https://openalex.org/W6967932694","https://openalex.org/W6968003151","https://openalex.org/W6976632921"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2082860237","https://openalex.org/W2119695867","https://openalex.org/W2130076355","https://openalex.org/W1990804418","https://openalex.org/W1993764875","https://openalex.org/W2046158694","https://openalex.org/W2788277189","https://openalex.org/W2013243191","https://openalex.org/W2034625591"],"abstract_inverted_index":null,"counts_by_year":[{"year":2026,"cited_by_count":6},{"year":2025,"cited_by_count":1}],"updated_date":"2026-07-15T18:14:33.161393","created_date":"2025-10-10T00:00:00"}
