{"id":"https://openalex.org/W2512452276","doi":"https://doi.org/10.1093/bioinformatics/btw538","title":"BatchQC: interactive software for evaluating sample and batch effects in genomic data","display_name":"BatchQC: interactive software for evaluating sample and batch effects in genomic data","publication_year":2016,"publication_date":"2016-08-18","ids":{"openalex":"https://openalex.org/W2512452276","doi":"https://doi.org/10.1093/bioinformatics/btw538","mag":"2512452276","pmid":"https://pubmed.ncbi.nlm.nih.gov/27540268"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btw538","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw538","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/24/3836/16920750/btw538.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/32/24/3836/16920750/btw538.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5025271649","display_name":"Solaiappan Manimaran","orcid":"https://orcid.org/0000-0001-8485-780X"},"institutions":[{"id":"https://openalex.org/I111088046","display_name":"Boston University","ror":"https://ror.org/05qwgg493","country_code":"US","type":"education","lineage":["https://openalex.org/I111088046"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Solaiappan Manimaran","raw_affiliation_strings":["1Department of Biostatistics, Boston University, Boston, MA","2Division of Computational Biomedicine, Boston University School of Medicine, Boston, MA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1Department of Biostatistics, Boston University, Boston, MA","institution_ids":["https://openalex.org/I111088046"]},{"raw_affiliation_string":"2Division of Computational Biomedicine, Boston University School of Medicine, Boston, MA","institution_ids":["https://openalex.org/I111088046"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5105891850","display_name":"Heather Marie Selby","orcid":null},"institutions":[{"id":"https://openalex.org/I111088046","display_name":"Boston University","ror":"https://ror.org/05qwgg493","country_code":"US","type":"education","lineage":["https://openalex.org/I111088046"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Heather Marie Selby","raw_affiliation_strings":["3Bioinformatics Program, Boston University, Boston, MA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"3Bioinformatics Program, Boston University, Boston, MA","institution_ids":["https://openalex.org/I111088046"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080561362","display_name":"Kwame Okrah","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Kwame Okrah","raw_affiliation_strings":["4gRED Oncology Biostatistics, Genentech, South San Francisco, CA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"4gRED Oncology Biostatistics, Genentech, South San Francisco, CA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053398502","display_name":"Claire Ruberman","orcid":null},"institutions":[{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Claire Ruberman","raw_affiliation_strings":["5Department of Biostatistics, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"5Department of Biostatistics, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD","institution_ids":["https://openalex.org/I145311948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5020868614","display_name":"Jeffrey T. Leek","orcid":"https://orcid.org/0000-0002-2873-2671"},"institutions":[{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jeffrey T. Leek","raw_affiliation_strings":["5Department of Biostatistics, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"5Department of Biostatistics, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD","institution_ids":["https://openalex.org/I145311948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5084245470","display_name":"John Quackenbush","orcid":"https://orcid.org/0000-0002-2702-5879"},"institutions":[{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]},{"id":"https://openalex.org/I4210117453","display_name":"Dana-Farber Cancer Institute","ror":"https://ror.org/02jzgtq86","country_code":"US","type":"facility","lineage":["https://openalex.org/I4210117453"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"John Quackenbush","raw_affiliation_strings":["6Department of Biostatistics and Computational Biology, Dana-Farber Cancer Institute, Boston, MA","7Department of Biostatistics, Harvard T.H. Chan School of Public Health, Boston, MA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"6Department of Biostatistics and Computational Biology, Dana-Farber Cancer Institute, Boston, MA","institution_ids":["https://openalex.org/I4210117453"]},{"raw_affiliation_string":"7Department of Biostatistics, Harvard T.H. Chan School of Public Health, Boston, MA","institution_ids":["https://openalex.org/I136199984"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010487226","display_name":"Benjamin Haibe\u2010Kains","orcid":"https://orcid.org/0000-0002-7684-0079"},"institutions":[{"id":"https://openalex.org/I1325899441","display_name":"University Health Network","ror":"https://ror.org/042xt5161","country_code":"CA","type":"healthcare","lineage":["https://openalex.org/I1325899441"]},{"id":"https://openalex.org/I185261750","display_name":"University of Toronto","ror":"https://ror.org/03dbr7087","country_code":"CA","type":"education","lineage":["https://openalex.org/I185261750"]},{"id":"https://openalex.org/I2802654988","display_name":"Princess Margaret Cancer Centre","ror":"https://ror.org/03zayce58","country_code":"CA","type":"healthcare","lineage":["https://openalex.org/I1325899441","https://openalex.org/I2802654988"]},{"id":"https://openalex.org/I4210090991","display_name":"Institute of Cancer Research","ror":"https://ror.org/00dpztj76","country_code":"CA","type":"facility","lineage":["https://openalex.org/I176337269","https://openalex.org/I4210090991"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Benjamin Haibe-Kains","raw_affiliation_strings":["10Ontario Institute of Cancer Research, Toronto, Ontario, Canada","8Departments of Medical Biophysics and Computer Science, University of Toronto, Toronto, Ontario, Canada","9Princess Margaret Cancer Centre, University Health NetworkToronto, Ontario, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"10Ontario Institute of Cancer Research, Toronto, Ontario, Canada","institution_ids":["https://openalex.org/I4210090991"]},{"raw_affiliation_string":"8Departments of Medical Biophysics and Computer Science, University of Toronto, Toronto, Ontario, Canada","institution_ids":["https://openalex.org/I185261750"]},{"raw_affiliation_string":"9Princess Margaret Cancer Centre, University Health NetworkToronto, Ontario, Canada","institution_ids":["https://openalex.org/I2802654988","https://openalex.org/I1325899441"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5048253009","display_name":"H\u00e9ctor Corrada Bravo","orcid":"https://orcid.org/0000-0002-1255-4444"},"institutions":[{"id":"https://openalex.org/I66946132","display_name":"University of Maryland, College Park","ror":"https://ror.org/047s2c258","country_code":"US","type":"education","lineage":["https://openalex.org/I66946132"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hector Corrada Bravo","raw_affiliation_strings":["11Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"11Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD","institution_ids":["https://openalex.org/I66946132"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5021633597","display_name":"W. Evan Johnson","orcid":"https://orcid.org/0000-0002-6247-6595"},"institutions":[{"id":"https://openalex.org/I111088046","display_name":"Boston University","ror":"https://ror.org/05qwgg493","country_code":"US","type":"education","lineage":["https://openalex.org/I111088046"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"W. Evan Johnson","raw_affiliation_strings":["1Department of Biostatistics, Boston University, Boston, MA","2Division of Computational Biomedicine, Boston University School of Medicine, Boston, MA","3Bioinformatics Program, Boston University, Boston, MA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1Department of Biostatistics, Boston University, Boston, MA","institution_ids":["https://openalex.org/I111088046"]},{"raw_affiliation_string":"2Division of Computational Biomedicine, Boston University School of Medicine, Boston, MA","institution_ids":["https://openalex.org/I111088046"]},{"raw_affiliation_string":"3Bioinformatics Program, Boston University, Boston, MA","institution_ids":["https://openalex.org/I111088046"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5021633597"],"corresponding_institution_ids":["https://openalex.org/I111088046"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":3.3077,"has_fulltext":false,"cited_by_count":67,"citation_normalized_percentile":{"value":0.92366665,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":99},"biblio":{"volume":"32","issue":"24","first_page":"3836","last_page":"3838"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.5443000197410583,"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/T10885","display_name":"Gene expression and cancer classification","score":0.5443000197410583,"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/T10261","display_name":"Genetic Associations and Epidemiology","score":0.19419999420642853,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.0851999968290329,"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/bioconductor","display_name":"Bioconductor","score":0.9679317474365234},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7866488695144653},{"id":"https://openalex.org/keywords/pipeline","display_name":"Pipeline (software)","score":0.719243049621582},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.7171555757522583},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.6288682818412781},{"id":"https://openalex.org/keywords/a-priori-and-a-posteriori","display_name":"A priori and a posteriori","score":0.4713408648967743},{"id":"https://openalex.org/keywords/sample","display_name":"Sample (material)","score":0.4633989632129669},{"id":"https://openalex.org/keywords/batch-processing","display_name":"Batch processing","score":0.4328742027282715},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.33439499139785767},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.09029224514961243}],"concepts":[{"id":"https://openalex.org/C2779694297","wikidata":"https://www.wikidata.org/wiki/Q2888953","display_name":"Bioconductor","level":3,"score":0.9679317474365234},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7866488695144653},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.719243049621582},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.7171555757522583},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.6288682818412781},{"id":"https://openalex.org/C75553542","wikidata":"https://www.wikidata.org/wiki/Q178161","display_name":"A priori and a posteriori","level":2,"score":0.4713408648967743},{"id":"https://openalex.org/C198531522","wikidata":"https://www.wikidata.org/wiki/Q485146","display_name":"Sample (material)","level":2,"score":0.4633989632129669},{"id":"https://openalex.org/C172658912","wikidata":"https://www.wikidata.org/wiki/Q661613","display_name":"Batch processing","level":2,"score":0.4328742027282715},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.33439499139785767},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.09029224514961243},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0},{"id":"https://openalex.org/C43617362","wikidata":"https://www.wikidata.org/wiki/Q170050","display_name":"Chromatography","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"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":"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":"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":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","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":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":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1093/bioinformatics/btw538","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw538","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/24/3836/16920750/btw538.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:27540268","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27540268","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:dash.harvard.edu:1/29739133","is_oa":true,"landing_page_url":"http://nrs.harvard.edu/urn-3:HUL.InstRepos:29739133","pdf_url":null,"source":{"id":"https://openalex.org/S4306401540","display_name":"Digital Access to Scholarship at Harvard (DASH) (Harvard University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I136199984","host_organization_name":"Harvard University","host_organization_lineage":["https://openalex.org/I136199984"],"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":"","raw_type":"Journal Article"},{"id":"pmh:oai:open-archive.highwire.org:bioinfo:32/24/3836","is_oa":false,"landing_page_url":"http://bioinformatics.oxfordjournals.org/cgi/content/short/32/24/3836","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"TEXT"},{"id":"pmh:oai:pubmedcentral.nih.gov:5167063","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5167063","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":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btw538","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw538","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/24/3836/16920750/btw538.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2232018507","display_name":null,"funder_award_id":"R01 HG005692, R01 ES025002","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2512452276.pdf"},"referenced_works_count":7,"referenced_works":["https://openalex.org/W1950169127","https://openalex.org/W2029276959","https://openalex.org/W2096192437","https://openalex.org/W2107665951","https://openalex.org/W2125419286","https://openalex.org/W2169353806","https://openalex.org/W3203034578"],"related_works":["https://openalex.org/W2135678793","https://openalex.org/W2109288169","https://openalex.org/W2978247079","https://openalex.org/W4223449272","https://openalex.org/W3037604406","https://openalex.org/W2140163842","https://openalex.org/W2166887457","https://openalex.org/W2157684052","https://openalex.org/W2130383124","https://openalex.org/W2982252354"],"abstract_inverted_index":{"Sequencing":[0],"and":[1,73,93,109,129],"microarray":[2],"samples":[3],"often":[4,17],"are":[5,32,137],"collected":[6],"or":[7,12,54],"processed":[8],"in":[9,27,82],"multiple":[10],"batches":[11],"at":[13,139],"different":[14],"times.":[15],"This":[16],"produces":[18],"technical":[19],"biases":[20],"that":[21,75],"can":[22,87],"lead":[23],"to":[24,51,96,112],"incorrect":[25],"results":[26],"the":[28,77,103,114],"downstream":[29],"analysis.":[30],"There":[31],"several":[33],"existing":[34,90],"batch":[35,80],"adjustment":[36,49,91],"tools":[37,92],"for":[38],"'-omics'":[39],"data,":[40],"but":[41],"they":[42],"do":[43],"not":[44],"indicate":[45],"a":[46,62,83],"priori":[47],"whether":[48],"needs":[50],"be":[52,58],"conducted":[53],"how":[55],"correction":[56],"should":[57],"applied.":[59],"We":[60,101],"present":[61],"software":[63,118],"pipeline,":[64],"BatchQC,":[65],"which":[66],"addresses":[67],"these":[68],"issues":[69],"using":[70],"interactive":[71],"visualizations":[72],"statistics":[74],"evaluate":[76,97],"impact":[78],"of":[79,116],"effects":[81],"genomic":[84],"dataset.":[85],"BatchQC":[86,104,123],"also":[88],"apply":[89],"allow":[94],"users":[95],"their":[98],"benefits":[99],"interactively.":[100],"used":[102],"pipeline":[105],"on":[106],"both":[107],"simulated":[108],"real":[110],"data":[111,136],"demonstrate":[113],"effectiveness":[115],"this":[117],"toolkit.":[119],"AVAILABILITY":[120],"AND":[121],"IMPLEMENTATION:":[122],"is":[124],"available":[125,138],"through":[126],"Bioconductor:":[127],"http://bioconductor.org/packages/BatchQC":[128],"GitHub:":[130],"https://github.com/mani2012/BatchQC":[131],"CONTACT:":[132],"wej@bu.eduSupplementary":[133],"information:":[134],"Supplementary":[135],"Bioinformatics":[140],"online.":[141]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":7},{"year":2024,"cited_by_count":7},{"year":2023,"cited_by_count":9},{"year":2022,"cited_by_count":6},{"year":2021,"cited_by_count":11},{"year":2020,"cited_by_count":5},{"year":2019,"cited_by_count":8},{"year":2018,"cited_by_count":9},{"year":2017,"cited_by_count":2}],"updated_date":"2026-05-29T09:21:14.243279","created_date":"2025-10-10T00:00:00"}