{"id":"https://openalex.org/W2142531618","doi":"https://doi.org/10.1186/1471-2105-15-264","title":"Enhancing the detection of barcoded reads in high throughput DNA sequencing data by controlling the false discovery rate","display_name":"Enhancing the detection of barcoded reads in high throughput DNA sequencing data by controlling the false discovery rate","publication_year":2014,"publication_date":"2014-08-07","ids":{"openalex":"https://openalex.org/W2142531618","doi":"https://doi.org/10.1186/1471-2105-15-264","mag":"2142531618","pmid":"https://pubmed.ncbi.nlm.nih.gov/25099007"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-15-264","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-15-264","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-15-264","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","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/10.1186/1471-2105-15-264","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5067466785","display_name":"Tilo Buschmann","orcid":null},"institutions":[{"id":"https://openalex.org/I4210130445","display_name":"Max Planck Institute for Human Cognitive and Brain Sciences","ror":"https://ror.org/0387jng26","country_code":"DE","type":"facility","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210130445"]},{"id":"https://openalex.org/I4210145647","display_name":"Fraunhofer Institute for Cell Therapy and Immunology","ror":"https://ror.org/04x45f476","country_code":"DE","type":"facility","lineage":["https://openalex.org/I4210145647","https://openalex.org/I4923324"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Tilo Buschmann","raw_affiliation_strings":["Max Planck Research Group: Neuroanatomy & Connectivity, Max Planck Institute for Human Cognitive and Brain Sciences, Leipzig, Germany. tibu@cbs.mpg.de","Max Planck Research Group: Neuroanatomy & Connectivity, Max Planck Institute for Human Cognitive and Brain Sciences, Leipzig, Germany","Department of Diagnostics, Fraunhofer Institute for Cell Therapy and Immunology, Leipzig, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Max Planck Research Group: Neuroanatomy & Connectivity, Max Planck Institute for Human Cognitive and Brain Sciences, Leipzig, Germany. tibu@cbs.mpg.de","institution_ids":["https://openalex.org/I4210130445"]},{"raw_affiliation_string":"Max Planck Research Group: Neuroanatomy & Connectivity, Max Planck Institute for Human Cognitive and Brain Sciences, Leipzig, Germany","institution_ids":["https://openalex.org/I4210130445"]},{"raw_affiliation_string":"Department of Diagnostics, Fraunhofer Institute for Cell Therapy and Immunology, Leipzig, Germany","institution_ids":["https://openalex.org/I4210145647"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100451772","display_name":"Rong Zhang","orcid":"https://orcid.org/0000-0001-6416-3763"},"institutions":[{"id":"https://openalex.org/I111381250","display_name":"Hebei Medical University","ror":"https://ror.org/04eymdx19","country_code":"CN","type":"education","lineage":["https://openalex.org/I111381250"]},{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["CN","US"],"is_corresponding":false,"raw_author_name":"Rong Zhang","raw_affiliation_strings":["Department of Therapeutic Radiology, Yale University School of Medicine, New Haven, USA","Department of Toxicology, School of Public Health, Hebei Medical University, Shijiazhuang, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Therapeutic Radiology, Yale University School of Medicine, New Haven, USA","institution_ids":["https://openalex.org/I32971472"]},{"raw_affiliation_string":"Department of Toxicology, School of Public Health, Hebei Medical University, Shijiazhuang, China","institution_ids":["https://openalex.org/I111381250"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021320536","display_name":"Douglas E. Brash","orcid":"https://orcid.org/0000-0001-7437-9373"},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Douglas E Brash","raw_affiliation_strings":["Department of Therapeutic Radiology, Yale University School of Medicine, New Haven, USA","Department of Therapeutic Radiology, Yale University, School of Medicine, New Haven, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Therapeutic Radiology, Yale University School of Medicine, New Haven, USA","institution_ids":["https://openalex.org/I32971472"]},{"raw_affiliation_string":"Department of Therapeutic Radiology, Yale University, School of Medicine, New Haven, USA","institution_ids":["https://openalex.org/I32971472"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5088720149","display_name":"Leonid Bystrykh","orcid":"https://orcid.org/0000-0001-6924-5602"},"institutions":[{"id":"https://openalex.org/I1334415907","display_name":"University Medical Center Groningen","ror":"https://ror.org/03cv38k47","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I1334415907"]},{"id":"https://openalex.org/I169381384","display_name":"University of Groningen","ror":"https://ror.org/012p63287","country_code":"NL","type":"education","lineage":["https://openalex.org/I169381384"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Leonid V Bystrykh","raw_affiliation_strings":["Laboratory of Ageing Biology and Stem Cells, European Research Institute for the Biology of Ageing, University Medical Center Groningen, University of Groningen, Groningen, The Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratory of Ageing Biology and Stem Cells, European Research Institute for the Biology of Ageing, University Medical Center Groningen, University of Groningen, Groningen, The Netherlands","institution_ids":["https://openalex.org/I169381384","https://openalex.org/I1334415907"]}]}],"institutions":[],"countries_distinct_count":4,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5067466785"],"corresponding_institution_ids":["https://openalex.org/I4210130445","https://openalex.org/I4210145647"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1428,"currency":"EUR","value_usd":1540},"fwci":0.9772,"has_fulltext":true,"cited_by_count":13,"citation_normalized_percentile":{"value":0.75441095,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"15","issue":"1","first_page":"264","last_page":"264"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.5672000050544739,"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":0.5672000050544739,"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/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.09570000320672989,"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"}},{"id":"https://openalex.org/T11970","display_name":"Molecular Biology Techniques and Applications","score":0.09179999679327011,"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/barcode","display_name":"Barcode","score":0.9327880144119263},{"id":"https://openalex.org/keywords/false-positive-paradox","display_name":"False positive paradox","score":0.7141687870025635},{"id":"https://openalex.org/keywords/false-discovery-rate","display_name":"False discovery rate","score":0.7085890769958496},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6341177225112915},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.5897789001464844},{"id":"https://openalex.org/keywords/false-positives-and-false-negatives","display_name":"False positives and false negatives","score":0.5566641092300415},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5173046588897705},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.5158969163894653},{"id":"https://openalex.org/keywords/false-positive-rate","display_name":"False positive rate","score":0.5096902847290039},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.48887819051742554},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.48250246047973633},{"id":"https://openalex.org/keywords/deep-sequencing","display_name":"Deep sequencing","score":0.4141487181186676},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.3995530903339386},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.29079359769821167},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.2821807563304901},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.27382349967956543},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.12402170896530151}],"concepts":[{"id":"https://openalex.org/C2776841711","wikidata":"https://www.wikidata.org/wiki/Q856","display_name":"Barcode","level":2,"score":0.9327880144119263},{"id":"https://openalex.org/C64869954","wikidata":"https://www.wikidata.org/wiki/Q1859747","display_name":"False positive paradox","level":2,"score":0.7141687870025635},{"id":"https://openalex.org/C193244246","wikidata":"https://www.wikidata.org/wiki/Q5432696","display_name":"False discovery rate","level":3,"score":0.7085890769958496},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6341177225112915},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.5897789001464844},{"id":"https://openalex.org/C112789634","wikidata":"https://www.wikidata.org/wiki/Q18207010","display_name":"False positives and false negatives","level":3,"score":0.5566641092300415},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5173046588897705},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.5158969163894653},{"id":"https://openalex.org/C95922358","wikidata":"https://www.wikidata.org/wiki/Q5432725","display_name":"False positive rate","level":2,"score":0.5096902847290039},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.48887819051742554},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.48250246047973633},{"id":"https://openalex.org/C132917006","wikidata":"https://www.wikidata.org/wiki/Q5250436","display_name":"Deep sequencing","level":4,"score":0.4141487181186676},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.3995530903339386},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.29079359769821167},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2821807563304901},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.27382349967956543},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.12402170896530151},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000254","descriptor_name":"Sodium-Potassium-Exchanging ATPase","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000254","descriptor_name":"Sodium-Potassium-Exchanging ATPase","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000254","descriptor_name":"Sodium-Potassium-Exchanging ATPase","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005189","descriptor_name":"False Positive Reactions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005189","descriptor_name":"False Positive Reactions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005189","descriptor_name":"False Positive Reactions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012015","descriptor_name":"Reference Standards","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012015","descriptor_name":"Reference Standards","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012015","descriptor_name":"Reference Standards","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D017931","descriptor_name":"DNA Primers","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017931","descriptor_name":"DNA Primers","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017931","descriptor_name":"DNA Primers","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","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},{"descriptor_ui":"D059018","descriptor_name":"DNA Contamination","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059018","descriptor_name":"DNA Contamination","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059018","descriptor_name":"DNA Contamination","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1186/1471-2105-15-264","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-15-264","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-15-264","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:25099007","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25099007","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:pubmedcentral.nih.gov:4133078","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4133078","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:pure.mpg.de:item_2056501","is_oa":true,"landing_page_url":"http://hdl.handle.net/11858/00-001M-0000-0023-CF51-0","pdf_url":"http://hdl.handle.net/11858/00-001M-0000-0023-CF51-0","source":{"id":"https://openalex.org/S4306400654","display_name":"MPG.PuRe (Max Planck Society)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I149899117","host_organization_name":"Max Planck Society","host_organization_lineage":["https://openalex.org/I149899117"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pure.rug.nl:publications/a61e877b-b055-44b6-b56a-5a4645290b29","is_oa":true,"landing_page_url":"https://research.rug.nl/en/publications/a61e877b-b055-44b6-b56a-5a4645290b29","pdf_url":"https://pure.rug.nl/ws/files/54028859/1471_2105_15_264.pdf","source":{"id":"https://openalex.org/S4306400420","display_name":"University of Groningen research database (University of Groningen / Centre for Information Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I169381384","host_organization_name":"University of Groningen","host_organization_lineage":["https://openalex.org/I169381384"],"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":"Buschmann, T, Zhang, R, Brash, D E & Bystrykh, L V 2014, 'Enhancing the detection of barcoded reads in high throughput DNA sequencing data by controlling the false discovery rate', Bmc Bioinformatics, vol. 15, 264. https://doi.org/10.1186/1471-2105-15-264","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:publica.fraunhofer.de:publica/236982","is_oa":false,"landing_page_url":"https://publica.fraunhofer.de/handle/publica/236982","pdf_url":null,"source":{"id":"https://openalex.org/S4306400318","display_name":"Fraunhofer-Publica (Fraunhofer-Gesellschaft)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4923324","host_organization_name":"Fraunhofer-Gesellschaft","host_organization_lineage":["https://openalex.org/I4923324"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"journal article"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-15-264","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-15-264","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-15-264","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G7298580536","display_name":null,"funder_award_id":"UL1 TR000142","funder_id":"https://openalex.org/F4320337472","funder_display_name":"National Center for Advancing Translational Sciences"}],"funders":[{"id":"https://openalex.org/F4320306078","display_name":"U.S. Department of Defense","ror":"https://ror.org/0447fe631"},{"id":"https://openalex.org/F4320308380","display_name":"Yale University","ror":"https://ror.org/03v76x132"},{"id":"https://openalex.org/F4320310016","display_name":"Michigan State University","ror":"https://ror.org/05hs6h993"},{"id":"https://openalex.org/F4320322725","display_name":"China Scholarship Council","ror":"https://ror.org/04atp4p48"},{"id":"https://openalex.org/F4320332431","display_name":"College of Engineering, Michigan State University","ror":"https://ror.org/05hs6h993"},{"id":"https://openalex.org/F4320337472","display_name":"National Center for Advancing Translational Sciences","ror":"https://ror.org/04pw6fb54"},{"id":"https://openalex.org/F4320338273","display_name":"Congressionally Directed Medical Research Programs","ror":"https://ror.org/03g2zjp07"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2142531618.pdf","grobid_xml":"https://content.openalex.org/works/W2142531618.grobid-xml"},"referenced_works_count":38,"referenced_works":["https://openalex.org/W178619957","https://openalex.org/W1909638271","https://openalex.org/W1983403167","https://openalex.org/W1986474467","https://openalex.org/W1994323133","https://openalex.org/W1997397398","https://openalex.org/W2003342954","https://openalex.org/W2048241918","https://openalex.org/W2049131636","https://openalex.org/W2066827579","https://openalex.org/W2074735241","https://openalex.org/W2095901358","https://openalex.org/W2097160089","https://openalex.org/W2099479910","https://openalex.org/W2102718644","https://openalex.org/W2103441770","https://openalex.org/W2103962160","https://openalex.org/W2105381419","https://openalex.org/W2105701655","https://openalex.org/W2108234281","https://openalex.org/W2108819945","https://openalex.org/W2110065044","https://openalex.org/W2112651015","https://openalex.org/W2113818262","https://openalex.org/W2114820744","https://openalex.org/W2123009189","https://openalex.org/W2124715997","https://openalex.org/W2132341951","https://openalex.org/W2133980123","https://openalex.org/W2141407136","https://openalex.org/W2141978199","https://openalex.org/W2147634297","https://openalex.org/W2157539385","https://openalex.org/W2610851698","https://openalex.org/W2951327121","https://openalex.org/W4247053599","https://openalex.org/W4399586924","https://openalex.org/W6610429496"],"related_works":["https://openalex.org/W1991225657","https://openalex.org/W2389124870","https://openalex.org/W2277687562","https://openalex.org/W4388328864","https://openalex.org/W2168149717","https://openalex.org/W2109453886","https://openalex.org/W1964895626","https://openalex.org/W2093463665","https://openalex.org/W2102122784","https://openalex.org/W4212966421"],"abstract_inverted_index":{"BACKGROUND:":[0],"DNA":[1,10,44,304],"barcodes":[2,23,184,233],"are":[3,112],"short":[4],"unique":[5],"sequences":[6,74,154],"used":[7],"to":[8,86,124,202,212,246,295,346],"label":[9],"or":[11,98],"RNA-derived":[12],"samples":[13],"in":[14,84,185,192,234,258,281,323],"multiplexed":[15],"deep":[16],"sequencing":[17,326],"experiments.":[18],"During":[19],"the":[20,38,41,54,138,162,173,176,181,186,196,214,237,252,259,275,282,317,332],"demultiplexing":[21],"step,":[22],"must":[24],"be":[25,62,122,347],"detected":[26,232],"and":[27,43,75,90,114,180,206,221,292,344],"their":[28],"position":[29,39],"identified.":[30],"In":[31,150,224],"some":[32],"cases":[33],"(e.g.,":[34],"with":[35,161,239],"PacBio":[36],"SMRT),":[37],"of":[40,95,140,158,175,183,227,236,242,274,285,301,303,316,319],"barcode":[42,73,153,177,222],"context":[45],"is":[46,66,82,135,329],"not":[47],"well":[48,144],"defined.":[49],"Many":[50],"reads":[51,89,142,220,238,322],"start":[52],"inside":[53],"genomic":[55],"insert":[56],"so":[57],"that":[58,134,337],"adjacent":[59,253],"primers":[60],"might":[61],"missed.":[63],"The":[64,189,261],"matter":[65],"further":[67,264],"complicated":[68],"by":[69,289],"coincidental":[70,159],"similarities":[71,160],"between":[72,204,219,306,342],"reference":[76,165],"DNA.":[77,166],"Therefore,":[78],"a":[79,92,225,240,267,312,324,339],"robust":[80],"strategy":[81],"required":[83],"order":[85],"detect":[87],"barcoded":[88,141,205,321],"avoid":[91],"large":[93],"number":[94,182],"false":[96,107,199,333],"positives":[97],"negatives.For":[99],"mass":[100],"inference":[101],"problems":[102],"such":[103],"as":[104,143,145],"this":[105,125,193],"one,":[106],"discovery":[108,200,334],"rate":[109,201,335],"(FDR)":[110],"methods":[111,120],"powerful":[113],"balanced":[115],"solutions.":[116],"Since":[117],"existing":[118],"FDR":[119,132],"cannot":[121],"applied":[123],"particular":[126],"problem,":[127],"we":[128,230,297],"present":[129],"an":[130,272],"adapted":[131],"method":[133,190,210,310],"suitable":[136],"for":[137,277],"detection":[139],"suggest":[146],"possible":[147],"improvements.":[148],"RESULTS:":[149],"our":[151],"analysis,":[152],"showed":[155],"high":[156],"rates":[157],"Mus":[163],"musculus":[164],"This":[167,209],"problem":[168,318],"became":[169],"more":[170],"acute":[171],"when":[172,251],"length":[174],"sequence":[178,255,278],"decreased":[179],"set":[187],"increased.":[188],"presented":[191],"paper":[194],"controls":[195],"tail":[197],"area-based":[198],"distinguish":[203],"unbarcoded":[207],"reads.":[208],"helps":[211],"establish":[213],"highest":[215],"acceptable":[216],"minimal":[217],"distance":[218],"sequences.":[223],"proof":[226],"concept":[228],"experiment":[229],"correctly":[231],"83%":[235],"precision":[241,250,345],"89%.":[243],"Sensitivity":[244],"improved":[245,265],"99%":[247,249],"at":[248],"primer":[254],"was":[256,263],"incorporated":[257],"analysis.":[260],"analysis":[262,273],"using":[266],"paired":[268],"end":[269],"strategy.":[270],"Following":[271],"data":[276],"variants":[279],"induced":[280],"Atp1a1":[283],"gene":[284],"C57BL/6":[286],"murine":[287],"melanocytes":[288],"ultraviolet":[290],"light":[291],"conferring":[293],"resistance":[294],"ouabain,":[296],"found":[298],"no":[299],"evidence":[300],"cross-contamination":[302],"material":[305],"samples.":[307],"CONCLUSION:":[308],"Our":[309],"offers":[311],"proper":[313,340],"quantitative":[314],"treatment":[315],"detecting":[320],"noisy":[325],"environment.":[327],"It":[328],"based":[330],"on":[331],"statistics":[336],"allows":[338],"trade-off":[341],"sensitivity":[343],"chosen.":[348]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":4},{"year":2015,"cited_by_count":2}],"updated_date":"2026-06-19T15:47:20.252518","created_date":"2025-10-10T00:00:00"}
