{"id":"https://openalex.org/W3205198892","doi":"https://doi.org/10.1093/bib/bbab122","title":"iSMNN: batch effect correction for single-cell RNA-seq data via iterative supervised mutual nearest neighbor refinement","display_name":"iSMNN: batch effect correction for single-cell RNA-seq data via iterative supervised mutual nearest neighbor refinement","publication_year":2021,"publication_date":"2021-03-15","ids":{"openalex":"https://openalex.org/W3205198892","doi":"https://doi.org/10.1093/bib/bbab122","mag":"3205198892","pmid":"https://pubmed.ncbi.nlm.nih.gov/33839756"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbab122","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbab122","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":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":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8579191","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5008604223","display_name":"Yuchen Yang","orcid":"https://orcid.org/0000-0001-5977-1617"},"institutions":[{"id":"https://openalex.org/I114027177","display_name":"University of North Carolina at Chapel Hill","ror":"https://ror.org/0130frc33","country_code":"US","type":"education","lineage":["https://openalex.org/I114027177"]},{"id":"https://openalex.org/I142974352","display_name":"National Sun Yat-sen University","ror":"https://ror.org/00mjawt10","country_code":"TW","type":"education","lineage":["https://openalex.org/I142974352"]},{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN","TW","US"],"is_corresponding":false,"raw_author_name":"Yuchen Yang","raw_affiliation_strings":["Department of Pathology and Laboratory Medicine and McAllister Heart Institute at the University of North Carolina at Chapel Hill , NC 27599,","Department of Statistics at the Sun Yat-sen University , NC 27599,","Department of Pathology and Laboratory Medicine and McAllister Heart Institute at the University of North Carolina at Chapel Hill, NC 27599, USA"],"affiliations":[{"raw_affiliation_string":"Department of Pathology and Laboratory Medicine and McAllister Heart Institute at the University of North Carolina at Chapel Hill , NC 27599,","institution_ids":["https://openalex.org/I114027177"]},{"raw_affiliation_string":"Department of Statistics at the Sun Yat-sen University , NC 27599,","institution_ids":["https://openalex.org/I157773358","https://openalex.org/I142974352"]},{"raw_affiliation_string":"Department of Pathology and Laboratory Medicine and McAllister Heart Institute at the University of North Carolina at Chapel Hill, NC 27599, USA","institution_ids":["https://openalex.org/I114027177"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100438758","display_name":"Gang Li","orcid":"https://orcid.org/0000-0003-0759-9063"},"institutions":[{"id":"https://openalex.org/I114027177","display_name":"University of North Carolina at Chapel Hill","ror":"https://ror.org/0130frc33","country_code":"US","type":"education","lineage":["https://openalex.org/I114027177"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Gang Li","raw_affiliation_strings":["Department of Statistics and Operations Research at the University of North Carolina at Chapel Hill , NC 27599,","Department of Statistics and Operations Research at the University of North Carolina at Chapel Hill, NC 27599, USA"],"affiliations":[{"raw_affiliation_string":"Department of Statistics and Operations Research at the University of North Carolina at Chapel Hill , NC 27599,","institution_ids":["https://openalex.org/I114027177"]},{"raw_affiliation_string":"Department of Statistics and Operations Research at the University of North Carolina at Chapel Hill, NC 27599, USA","institution_ids":["https://openalex.org/I114027177"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002533960","display_name":"Yifang Xie","orcid":"https://orcid.org/0000-0002-5501-4018"},"institutions":[{"id":"https://openalex.org/I114027177","display_name":"University of North Carolina at Chapel Hill","ror":"https://ror.org/0130frc33","country_code":"US","type":"education","lineage":["https://openalex.org/I114027177"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yifang Xie","raw_affiliation_strings":["Department of Pathology and Laboratory Medicine at the University of North Carolina at Chapel Hill , NC 27599,","Department of Pathology and Laboratory Medicine at the University of North Carolina at Chapel Hill, NC 27599, USA"],"affiliations":[{"raw_affiliation_string":"Department of Pathology and Laboratory Medicine at the University of North Carolina at Chapel Hill , NC 27599,","institution_ids":["https://openalex.org/I114027177"]},{"raw_affiliation_string":"Department of Pathology and Laboratory Medicine at the University of North Carolina at Chapel Hill, NC 27599, USA","institution_ids":["https://openalex.org/I114027177"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100335850","display_name":"Li Wang","orcid":"https://orcid.org/0000-0001-7415-5599"},"institutions":[{"id":"https://openalex.org/I114027177","display_name":"University of North Carolina at Chapel Hill","ror":"https://ror.org/0130frc33","country_code":"US","type":"education","lineage":["https://openalex.org/I114027177"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Li Wang","raw_affiliation_strings":["Department of Pathology and Laboratory Medicine and McAllister Heart Institute at the University of North Carolina at Chapel Hill , NC 27599,","Department of Pathology and Laboratory Medicine and McAllister Heart Institute at the University of North Carolina at Chapel Hill, NC 27599, USA"],"affiliations":[{"raw_affiliation_string":"Department of Pathology and Laboratory Medicine and McAllister Heart Institute at the University of North Carolina at Chapel Hill , NC 27599,","institution_ids":["https://openalex.org/I114027177"]},{"raw_affiliation_string":"Department of Pathology and Laboratory Medicine and McAllister Heart Institute at the University of North Carolina at Chapel Hill, NC 27599, USA","institution_ids":["https://openalex.org/I114027177"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080272169","display_name":"Taylor M. Lagler","orcid":null},"institutions":[{"id":"https://openalex.org/I114027177","display_name":"University of North Carolina at Chapel Hill","ror":"https://ror.org/0130frc33","country_code":"US","type":"education","lineage":["https://openalex.org/I114027177"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Taylor M Lagler","raw_affiliation_strings":["Department of Biostatistics at the University of North Carolina at Chapel Hill , NC 27599,","Department of Biostatistics at the University of North Carolina at Chapel Hill, NC 27599, USA"],"affiliations":[{"raw_affiliation_string":"Department of Biostatistics at the University of North Carolina at Chapel Hill , NC 27599,","institution_ids":["https://openalex.org/I114027177"]},{"raw_affiliation_string":"Department of Biostatistics at the University of North Carolina at Chapel Hill, NC 27599, USA","institution_ids":["https://openalex.org/I114027177"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014559891","display_name":"Yingxi Yang","orcid":"https://orcid.org/0000-0001-5153-2769"},"institutions":[{"id":"https://openalex.org/I114027177","display_name":"University of North Carolina at Chapel Hill","ror":"https://ror.org/0130frc33","country_code":"US","type":"education","lineage":["https://openalex.org/I114027177"]},{"id":"https://openalex.org/I142974352","display_name":"National Sun Yat-sen University","ror":"https://ror.org/00mjawt10","country_code":"TW","type":"education","lineage":["https://openalex.org/I142974352"]},{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN","TW","US"],"is_corresponding":false,"raw_author_name":"Yingxi Yang","raw_affiliation_strings":["Department of Pathology and Laboratory Medicine and McAllister Heart Institute at the University of North Carolina at Chapel Hill , NC 27599,","Department of Statistics at the Sun Yat-sen University , NC 27599,","Department of Statistics at the Sun Yat-sen University, NC 27599, USA"],"affiliations":[{"raw_affiliation_string":"Department of Pathology and Laboratory Medicine and McAllister Heart Institute at the University of North Carolina at Chapel Hill , NC 27599,","institution_ids":["https://openalex.org/I114027177"]},{"raw_affiliation_string":"Department of Statistics at the Sun Yat-sen University , NC 27599,","institution_ids":["https://openalex.org/I157773358","https://openalex.org/I142974352"]},{"raw_affiliation_string":"Department of Statistics at the Sun Yat-sen University, NC 27599, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5028481056","display_name":"Jiandong Liu","orcid":"https://orcid.org/0000-0003-0035-3570"},"institutions":[{"id":"https://openalex.org/I114027177","display_name":"University of North Carolina at Chapel Hill","ror":"https://ror.org/0130frc33","country_code":"US","type":"education","lineage":["https://openalex.org/I114027177"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jiandong Liu","raw_affiliation_strings":["Department of Pathology and Laboratory Medicine and McAllister Heart Institute at the University of North Carolina at Chapel Hill , NC 27599,","Department of Pathology and Laboratory Medicine and McAllister Heart Institute at the University of North Carolina at Chapel Hill, NC 27599, USA"],"affiliations":[{"raw_affiliation_string":"Department of Pathology and Laboratory Medicine and McAllister Heart Institute at the University of North Carolina at Chapel Hill , NC 27599,","institution_ids":["https://openalex.org/I114027177"]},{"raw_affiliation_string":"Department of Pathology and Laboratory Medicine and McAllister Heart Institute at the University of North Carolina at Chapel Hill, NC 27599, USA","institution_ids":["https://openalex.org/I114027177"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100340539","display_name":"Qian Li","orcid":"https://orcid.org/0000-0001-7614-5618"},"institutions":[{"id":"https://openalex.org/I114027177","display_name":"University of North Carolina at Chapel Hill","ror":"https://ror.org/0130frc33","country_code":"US","type":"education","lineage":["https://openalex.org/I114027177"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Li Qian","raw_affiliation_strings":["Department of Pathology and Laboratory Medicine and McAllister Heart Institute at the University of North Carolina at Chapel Hill , NC 27599,","Department of Pathology and Laboratory Medicine and McAllister Heart Institute at the University of North Carolina at Chapel Hill, NC 27599, USA"],"affiliations":[{"raw_affiliation_string":"Department of Pathology and Laboratory Medicine and McAllister Heart Institute at the University of North Carolina at Chapel Hill , NC 27599,","institution_ids":["https://openalex.org/I114027177"]},{"raw_affiliation_string":"Department of Pathology and Laboratory Medicine and McAllister Heart Institute at the University of North Carolina at Chapel Hill, NC 27599, USA","institution_ids":["https://openalex.org/I114027177"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100369226","display_name":"Yun Li","orcid":"https://orcid.org/0000-0002-9275-4189"},"institutions":[{"id":"https://openalex.org/I114027177","display_name":"University of North Carolina at Chapel Hill","ror":"https://ror.org/0130frc33","country_code":"US","type":"education","lineage":["https://openalex.org/I114027177"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Yun Li","raw_affiliation_strings":["Departments of Genetics, Biostatistics and Computer Science at the University of North Carolina at Chapel Hill , NC 27599,","Departments of Genetics, Biostatistics and Computer Science at the University of North Carolina at Chapel Hill, NC 27599, USA"],"affiliations":[{"raw_affiliation_string":"Departments of Genetics, Biostatistics and Computer Science at the University of North Carolina at Chapel Hill , NC 27599,","institution_ids":["https://openalex.org/I114027177"]},{"raw_affiliation_string":"Departments of Genetics, Biostatistics and Computer Science at the University of North Carolina at Chapel Hill, NC 27599, USA","institution_ids":["https://openalex.org/I114027177"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5100340539","https://openalex.org/A5100369226"],"corresponding_institution_ids":["https://openalex.org/I114027177"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":1.2201,"has_fulltext":false,"cited_by_count":18,"citation_normalized_percentile":{"value":0.79094392,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"22","issue":"5","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":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/T10773","display_name":"Extracellular vesicles in disease","score":0.9768000245094299,"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":0.9695000052452087,"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":0.7362167239189148},{"id":"https://openalex.org/keywords/benchmarking","display_name":"Benchmarking","score":0.671540379524231},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.43481189012527466},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4249551296234131},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3910504877567291},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.3373069167137146},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.3369324803352356},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.07313919067382812}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7362167239189148},{"id":"https://openalex.org/C86251818","wikidata":"https://www.wikidata.org/wiki/Q816754","display_name":"Benchmarking","level":2,"score":0.671540379524231},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.43481189012527466},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4249551296234131},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3910504877567291},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.3373069167137146},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.3369324803352356},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.07313919067382812},{"id":"https://openalex.org/C162853370","wikidata":"https://www.wikidata.org/wiki/Q39809","display_name":"Marketing","level":1,"score":0.0},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0},{"id":"https://openalex.org/C144133560","wikidata":"https://www.wikidata.org/wiki/Q4830453","display_name":"Business","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002478","descriptor_name":"Cells, Cultured","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002478","descriptor_name":"Cells, Cultured","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002478","descriptor_name":"Cells, Cultured","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":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","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":"D019985","descriptor_name":"Benchmarking","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","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},{"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/bbab122","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbab122","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":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":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:33839756","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33839756","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:8579191","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8579191","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:8579191","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8579191","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1112149054","display_name":null,"funder_award_id":"R01 HL139880","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G3865779237","display_name":null,"funder_award_id":"R01 HL144551","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6020865454","display_name":null,"funder_award_id":"R01 GM105785","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6149896329","display_name":null,"funder_award_id":"R01 HL128331","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6467098471","display_name":null,"funder_award_id":"R01 HL139976","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6595413269","display_name":null,"funder_award_id":"18TPA34180058","funder_id":"https://openalex.org/F4320306230","funder_display_name":"American Heart Association"},{"id":"https://openalex.org/G6628600110","display_name":null,"funder_award_id":"18CDA34110340","funder_id":"https://openalex.org/F4320306230","funder_display_name":"American Heart Association"},{"id":"https://openalex.org/G7763635395","display_name":null,"funder_award_id":"R01 HL129132","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7856792256","display_name":null,"funder_award_id":"15GRNT25530005","funder_id":"https://openalex.org/F4320306230","funder_display_name":"American Heart Association"}],"funders":[{"id":"https://openalex.org/F4320306230","display_name":"American Heart Association","ror":"https://ror.org/013kjyp64"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":33,"referenced_works":["https://openalex.org/W1988391018","https://openalex.org/W2035618305","https://openalex.org/W2177432730","https://openalex.org/W2320656788","https://openalex.org/W2407505051","https://openalex.org/W2465917013","https://openalex.org/W2606066853","https://openalex.org/W2766959028","https://openalex.org/W2774644977","https://openalex.org/W2794521141","https://openalex.org/W2794891507","https://openalex.org/W2902652978","https://openalex.org/W2907783748","https://openalex.org/W2912390237","https://openalex.org/W2942880491","https://openalex.org/W2948469692","https://openalex.org/W2949177718","https://openalex.org/W2951506174","https://openalex.org/W2962073995","https://openalex.org/W2967177832","https://openalex.org/W2967290233","https://openalex.org/W2979961166","https://openalex.org/W2984472267","https://openalex.org/W3021145032","https://openalex.org/W3022072135","https://openalex.org/W3037558964","https://openalex.org/W3092295864","https://openalex.org/W3099404564","https://openalex.org/W3113074526","https://openalex.org/W3135962566","https://openalex.org/W6719894144","https://openalex.org/W6763920528","https://openalex.org/W6776941233"],"related_works":["https://openalex.org/W4238897586","https://openalex.org/W435179959","https://openalex.org/W2619091065","https://openalex.org/W2341842940","https://openalex.org/W2059640416","https://openalex.org/W1490753184","https://openalex.org/W2284465472","https://openalex.org/W2291782699","https://openalex.org/W1993948687","https://openalex.org/W2011676020"],"abstract_inverted_index":{"Batch":[0],"effect":[1,22,66],"correction":[2,23,67],"is":[3,24,108],"an":[4],"essential":[5],"step":[6],"in":[7],"the":[8,49,55,88,91,97,113,116,128,139],"integrative":[9],"analysis":[10],"of":[11,30,38,45,90,94,99,115,130,142],"multiple":[12,158],"single-cell":[13,169],"RNA-sequencing":[14],"(scRNA-seq)":[15],"data.":[16],"One":[17],"state-of-the-art":[18],"strategy":[19],"for":[20,156],"batch":[21,51,65],"via":[25,69],"unsupervised":[26],"or":[27],"supervised":[28,71],"detection":[29],"mutual":[31],"nearest":[32],"neighbors":[33],"(MNNs).":[34],"However,":[35],"both":[36,82],"types":[37],"methods":[39],"only":[40],"detect":[41],"MNNs":[42,95],"across":[43,75,120],"batches":[44],"uncorrected":[46],"data,":[47],"where":[48],"large":[50],"effects":[52],"may":[53],"affect":[54],"MNN":[56,72],"search.":[57],"To":[58],"address":[59],"this":[60],"issue,":[61],"we":[62],"presented":[63],"a":[64,153],"approach":[68],"iterative":[70,92],"(iSMNN)":[73],"refinement":[74,93],"data":[76],"after":[77],"correction.":[78,100],"Our":[79],"benchmarking":[80],"on":[81,96],"simulation":[83],"and":[84,165],"real":[85],"datasets":[86,160],"showed":[87],"advantages":[89],"performance":[98],"Compared":[101],"to":[102,110,138],"popular":[103],"alternative":[104],"methods,":[105],"our":[106],"iSMNN":[107,124,150],"able":[109],"better":[111],"mix":[112],"cells":[114],"same":[117],"cell":[118,144],"type":[119],"batches.":[121],"In":[122],"addition,":[123],"can":[125,162],"also":[126],"facilitate":[127,163],"identification":[129],"differentially":[131],"expressed":[132],"genes":[133],"(DEGs)":[134],"that":[135,149,161],"are":[136],"relevant":[137],"biological":[140,164],"function":[141],"certain":[143],"types.":[145],"These":[146],"results":[147],"indicated":[148],"will":[151],"be":[152],"valuable":[154],"method":[155],"integrating":[157],"scRNA-seq":[159],"medical":[166],"studies":[167],"at":[168],"level.":[170]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":8},{"year":2023,"cited_by_count":4},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":2}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
