{"id":"https://openalex.org/W2105868188","doi":"https://doi.org/10.1186/1471-2105-13-221","title":"ReQON: a Bioconductor package for recalibrating quality scores from next-generation sequencing data","display_name":"ReQON: a Bioconductor package for recalibrating quality scores from next-generation sequencing data","publication_year":2012,"publication_date":"2012-09-04","ids":{"openalex":"https://openalex.org/W2105868188","doi":"https://doi.org/10.1186/1471-2105-13-221","mag":"2105868188","pmid":"https://pubmed.ncbi.nlm.nih.gov/22946927"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-13-221","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-13-221","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-13-221","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-13-221","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5049359065","display_name":"Christopher R. Cabanski","orcid":"https://orcid.org/0009-0007-9938-1331"},"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":"Christopher R Cabanski","raw_affiliation_strings":["Department of Statistics and Operations Research, Chapel Hill, NC, USA","Department of Statistics and Operations Research, Chapel Hill, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Statistics and Operations Research, Chapel Hill, NC, USA","institution_ids":["https://openalex.org/I114027177"]},{"raw_affiliation_string":"Department of Statistics and Operations Research, Chapel Hill, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074175904","display_name":"Keary Cavin","orcid":null},"institutions":[{"id":"https://openalex.org/I69048370","display_name":"Renaissance Computing Institute","ror":"https://ror.org/01s91ey96","country_code":"US","type":"education","lineage":["https://openalex.org/I137902535","https://openalex.org/I170897317","https://openalex.org/I69048370"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Keary Cavin","raw_affiliation_strings":["Renaissance Computing Center, Chapel Hill, NC, USA","Renaissance Computing Center, Chapel Hill, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Renaissance Computing Center, Chapel Hill, NC, USA","institution_ids":["https://openalex.org/I69048370"]},{"raw_affiliation_string":"Renaissance Computing Center, Chapel Hill, USA","institution_ids":["https://openalex.org/I69048370"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5043972221","display_name":"Chris Bizon","orcid":null},"institutions":[{"id":"https://openalex.org/I69048370","display_name":"Renaissance Computing Institute","ror":"https://ror.org/01s91ey96","country_code":"US","type":"education","lineage":["https://openalex.org/I137902535","https://openalex.org/I170897317","https://openalex.org/I69048370"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Chris Bizon","raw_affiliation_strings":["Renaissance Computing Center, Chapel Hill, NC, USA","Renaissance Computing Center, Chapel Hill, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Renaissance Computing Center, Chapel Hill, NC, USA","institution_ids":["https://openalex.org/I69048370"]},{"raw_affiliation_string":"Renaissance Computing Center, Chapel Hill, USA","institution_ids":["https://openalex.org/I69048370"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5047751537","display_name":"Matthew D. Wilkerson","orcid":"https://orcid.org/0000-0003-2727-0230"},"institutions":[{"id":"https://openalex.org/I4390039329","display_name":"UNC Lineberger Comprehensive Cancer Center","ror":"https://ror.org/043ehm030","country_code":null,"type":"healthcare","lineage":["https://openalex.org/I114027177","https://openalex.org/I4390039329"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Matthew D Wilkerson","raw_affiliation_strings":["Lineberger Comprehensive Cancer Center, Chapel Hill, NC, USA","Lineberger Comprehensive Cancer Center, Chapel Hill, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Lineberger Comprehensive Cancer Center, Chapel Hill, NC, USA","institution_ids":["https://openalex.org/I4390039329"]},{"raw_affiliation_string":"Lineberger Comprehensive Cancer Center, Chapel Hill, USA","institution_ids":["https://openalex.org/I4390039329"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054811851","display_name":"Joel S. Parker","orcid":"https://orcid.org/0000-0003-2080-6901"},"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/I4390039329","display_name":"UNC Lineberger Comprehensive Cancer Center","ror":"https://ror.org/043ehm030","country_code":null,"type":"healthcare","lineage":["https://openalex.org/I114027177","https://openalex.org/I4390039329"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Joel S Parker","raw_affiliation_strings":["Department of Genetics, Chapel Hill, USA","Lineberger Comprehensive Cancer Center, Chapel Hill, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Genetics, Chapel Hill, USA","institution_ids":["https://openalex.org/I114027177"]},{"raw_affiliation_string":"Lineberger Comprehensive Cancer Center, Chapel Hill, USA","institution_ids":["https://openalex.org/I4390039329"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004390437","display_name":"Kirk C. Wilhelmsen","orcid":"https://orcid.org/0000-0002-4432-8302"},"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/I4390039329","display_name":"UNC Lineberger Comprehensive Cancer Center","ror":"https://ror.org/043ehm030","country_code":null,"type":"healthcare","lineage":["https://openalex.org/I114027177","https://openalex.org/I4390039329"]},{"id":"https://openalex.org/I69048370","display_name":"Renaissance Computing Institute","ror":"https://ror.org/01s91ey96","country_code":"US","type":"education","lineage":["https://openalex.org/I137902535","https://openalex.org/I170897317","https://openalex.org/I69048370"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kirk C Wilhelmsen","raw_affiliation_strings":["Lineberger Comprehensive Cancer Center, Chapel Hill, USA","Renaissance Computing Center, Chapel Hill, USA","Department of Genetics, Chapel Hill, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Lineberger Comprehensive Cancer Center, Chapel Hill, USA","institution_ids":["https://openalex.org/I4390039329"]},{"raw_affiliation_string":"Renaissance Computing Center, Chapel Hill, USA","institution_ids":["https://openalex.org/I69048370"]},{"raw_affiliation_string":"Department of Genetics, Chapel Hill, USA","institution_ids":["https://openalex.org/I114027177"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062498736","display_name":"Charles M. Perou","orcid":"https://orcid.org/0000-0001-9827-2247"},"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/I4390039329","display_name":"UNC Lineberger Comprehensive Cancer Center","ror":"https://ror.org/043ehm030","country_code":null,"type":"healthcare","lineage":["https://openalex.org/I114027177","https://openalex.org/I4390039329"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Charles M Perou","raw_affiliation_strings":["Department of Genetics, Chapel Hill, USA","Lineberger Comprehensive Cancer Center, Chapel Hill, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Genetics, Chapel Hill, USA","institution_ids":["https://openalex.org/I114027177"]},{"raw_affiliation_string":"Lineberger Comprehensive Cancer Center, Chapel Hill, USA","institution_ids":["https://openalex.org/I4390039329"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5060651495","display_name":"J. S. Marron","orcid":null},"institutions":[{"id":"https://openalex.org/I4390039329","display_name":"UNC Lineberger Comprehensive Cancer Center","ror":"https://ror.org/043ehm030","country_code":null,"type":"healthcare","lineage":["https://openalex.org/I114027177","https://openalex.org/I4390039329"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"JS Marron","raw_affiliation_strings":["Department of Statistics and Operations Research, Chapel Hill, USA","Lineberger Comprehensive Cancer Center, Chapel Hill, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Statistics and Operations Research, Chapel Hill, USA","institution_ids":[]},{"raw_affiliation_string":"Lineberger Comprehensive Cancer Center, Chapel Hill, USA","institution_ids":["https://openalex.org/I4390039329"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5068906036","display_name":"D. Neil Hayes","orcid":"https://orcid.org/0000-0001-6203-7771"},"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/I4390039329","display_name":"UNC Lineberger Comprehensive Cancer Center","ror":"https://ror.org/043ehm030","country_code":null,"type":"healthcare","lineage":["https://openalex.org/I114027177","https://openalex.org/I4390039329"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"D Neil Hayes","raw_affiliation_strings":["Lineberger Comprehensive Cancer Center, Chapel Hill, USA","Department of Internal Medicine, Division of Medical Oncology, Multidisciplinary Thoracic Oncology Program, University of North Carolina at Chapel Hill, Chapel Hill, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Lineberger Comprehensive Cancer Center, Chapel Hill, USA","institution_ids":["https://openalex.org/I4390039329"]},{"raw_affiliation_string":"Department of Internal Medicine, Division of Medical Oncology, Multidisciplinary Thoracic Oncology Program, University of North Carolina at Chapel Hill, Chapel Hill, USA","institution_ids":["https://openalex.org/I114027177"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5068906036"],"corresponding_institution_ids":["https://openalex.org/I114027177","https://openalex.org/I4390039329"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.5374,"has_fulltext":true,"cited_by_count":22,"citation_normalized_percentile":{"value":0.66199363,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"13","issue":"1","first_page":"221","last_page":"221"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.8137999773025513,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.8137999773025513,"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/T11642","display_name":"Genomics and Rare Diseases","score":0.05079999938607216,"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/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.038100000470876694,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/bioconductor","display_name":"Bioconductor","score":0.9363319277763367},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.637397825717926},{"id":"https://openalex.org/keywords/quality-score","display_name":"Quality Score","score":0.6048678755760193},{"id":"https://openalex.org/keywords/quality","display_name":"Quality (philosophy)","score":0.5801708698272705},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5339635014533997},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.5184511542320251},{"id":"https://openalex.org/keywords/logistic-regression","display_name":"Logistic regression","score":0.5055627822875977},{"id":"https://openalex.org/keywords/r-package","display_name":"R package","score":0.500962495803833},{"id":"https://openalex.org/keywords/data-quality","display_name":"Data quality","score":0.4161022901535034},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.3702961206436157},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.23680898547172546},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1754986047744751},{"id":"https://openalex.org/keywords/metric","display_name":"Metric (unit)","score":0.16944748163223267},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.1683897078037262},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.11143076419830322},{"id":"https://openalex.org/keywords/operations-management","display_name":"Operations management","score":0.10016223788261414},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.07968246936798096}],"concepts":[{"id":"https://openalex.org/C2779694297","wikidata":"https://www.wikidata.org/wiki/Q2888953","display_name":"Bioconductor","level":3,"score":0.9363319277763367},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.637397825717926},{"id":"https://openalex.org/C2779346075","wikidata":"https://www.wikidata.org/wiki/Q7268763","display_name":"Quality Score","level":3,"score":0.6048678755760193},{"id":"https://openalex.org/C2779530757","wikidata":"https://www.wikidata.org/wiki/Q1207505","display_name":"Quality (philosophy)","level":2,"score":0.5801708698272705},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5339635014533997},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5184511542320251},{"id":"https://openalex.org/C151956035","wikidata":"https://www.wikidata.org/wiki/Q1132755","display_name":"Logistic regression","level":2,"score":0.5055627822875977},{"id":"https://openalex.org/C2984074130","wikidata":"https://www.wikidata.org/wiki/Q73539779","display_name":"R package","level":2,"score":0.500962495803833},{"id":"https://openalex.org/C24756922","wikidata":"https://www.wikidata.org/wiki/Q1757694","display_name":"Data quality","level":3,"score":0.4161022901535034},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.3702961206436157},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.23680898547172546},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1754986047744751},{"id":"https://openalex.org/C176217482","wikidata":"https://www.wikidata.org/wiki/Q860554","display_name":"Metric (unit)","level":2,"score":0.16944748163223267},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.1683897078037262},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.11143076419830322},{"id":"https://openalex.org/C21547014","wikidata":"https://www.wikidata.org/wiki/Q1423657","display_name":"Operations management","level":1,"score":0.10016223788261414},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.07968246936798096},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","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":"D002138","descriptor_name":"Calibration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002138","descriptor_name":"Calibration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002138","descriptor_name":"Calibration","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":"D016015","descriptor_name":"Logistic Models","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016015","descriptor_name":"Logistic Models","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016015","descriptor_name":"Logistic Models","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","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":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/1471-2105-13-221","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-13-221","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-13-221","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:22946927","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22946927","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:cdr.lib.unc.edu:uuid:b178e043-cd14-4223-8780-dd7d4c1e39e2","is_oa":true,"landing_page_url":"https://cdr.lib.unc.edu/record/uuid:b178e043-cd14-4223-8780-dd7d4c1e39e2","pdf_url":null,"source":{"id":"https://openalex.org/S4306401075","display_name":"Carolina Digital Repository (University of North Carolina at Chapel Hill)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I114027177","host_organization_name":"University of North Carolina at Chapel Hill","host_organization_lineage":["https://openalex.org/I114027177"],"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":"Text"},{"id":"pmh:oai:doaj.org/article:1b19918c8e124e9cb9ef86f0b300690e","is_oa":false,"landing_page_url":"https://doaj.org/article/1b19918c8e124e9cb9ef86f0b300690e","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 13, Iss 1, p 221 (2012)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:2450021","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3447716","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-13-221","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-13-221","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-13-221","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Reduced inequalities","score":0.6399999856948853,"id":"https://metadata.un.org/sdg/10"}],"awards":[{"id":"https://openalex.org/G3829197932","display_name":null,"funder_award_id":"DA030976","funder_id":"https://openalex.org/F4320337347","funder_display_name":"National Institute on Drug Abuse"},{"id":"https://openalex.org/G7121276606","display_name":null,"funder_award_id":"U24 CA143848","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G783805852","display_name":null,"funder_award_id":"DA030976","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"},{"id":"https://openalex.org/F4320337347","display_name":"National Institute on Drug Abuse","ror":"https://ror.org/00fq5cm18"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2105868188.pdf","grobid_xml":"https://content.openalex.org/works/W2105868188.grobid-xml"},"referenced_works_count":16,"referenced_works":["https://openalex.org/W1926851645","https://openalex.org/W2021341670","https://openalex.org/W2082376103","https://openalex.org/W2083854815","https://openalex.org/W2108234281","https://openalex.org/W2119923823","https://openalex.org/W2121016876","https://openalex.org/W2124960286","https://openalex.org/W2126144698","https://openalex.org/W2127515057","https://openalex.org/W2131016694","https://openalex.org/W2131088968","https://openalex.org/W2143173327","https://openalex.org/W2160697532","https://openalex.org/W2168133698","https://openalex.org/W2324171367"],"related_works":["https://openalex.org/W2982252354","https://openalex.org/W2728564446","https://openalex.org/W3045904767","https://openalex.org/W2161868542","https://openalex.org/W2140163842","https://openalex.org/W3156537409","https://openalex.org/W2747931568","https://openalex.org/W2133055377","https://openalex.org/W2921090651","https://openalex.org/W2287365612"],"abstract_inverted_index":{"BACKGROUND:":[0],"Next-generation":[1],"sequencing":[2,66,107,117,173],"technologies":[3],"have":[4,21,39],"become":[5],"important":[6],"tools":[7,134],"for":[8,166,171],"genome-wide":[9],"studies.":[10],"However,":[11],"the":[12,28,44,55,77,80,95,103,122,189,200,203],"quality":[13,29,57,87,124,148,169,184],"scores":[14,30,58,88,170],"that":[15,53,84,89,97,137],"are":[16,31,90],"assigned":[17],"to":[18,24,102,130],"each":[19],"base":[20,56,168],"been":[22],"shown":[23],"be":[25],"inaccurate.":[26],"If":[27],"used":[32],"in":[33,94,145,160],"downstream":[34,192],"analyses,":[35],"these":[36],"inaccuracies":[37],"can":[38,187],"a":[40,51,106,111,177],"significant":[41],"impact":[42],"on":[43],"results.":[45],"RESULTS:":[46],"Here":[47],"we":[48],"present":[49],"ReQON,":[50],"tool":[52],"recalibrates":[54],"from":[59],"an":[60,154],"input":[61],"BAM":[62,179],"file":[63,180],"of":[64,79,105,114,147,191,202],"aligned":[65],"data":[67],"using":[68],"logistic":[69],"regression.":[70],"ReQON":[71,85,129,138,152,175],"also":[72,127],"generates":[73],"diagnostic":[74,197],"plots":[75,198],"showing":[76,199],"effectiveness":[78,201],"recalibration.":[81,204],"We":[82,126],"show":[83,136],"produces":[86,176,195],"both":[91],"more":[92,99,182],"accurate,":[93],"sense":[96],"they":[98],"closely":[100],"correspond":[101],"probability":[104],"error,":[108],"and":[109,119,135,142,162,194],"do":[110],"better":[112],"job":[113],"discriminating":[115],"between":[116],"errors":[118],"non-errors":[120],"than":[121],"original":[123],"scores.":[125],"compare":[128],"other":[131],"available":[132,163],"recalibration":[133],"is":[139,153],"less":[140],"biased":[141],"performs":[143],"favorably":[144],"terms":[146],"score":[149],"accuracy.":[150],"CONCLUSION:":[151],"open":[155],"source":[156],"software":[157],"package,":[158],"written":[159],"R":[161],"through":[164],"Bioconductor,":[165],"recalibrating":[167],"next-generation":[172],"data.":[174],"new":[178],"with":[181],"accurate":[183],"scores,":[185],"which":[186],"improve":[188],"results":[190],"analysis,":[193],"several":[196]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":6},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":3}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
