Search: (WFRF:(Dermitzakis Emmanouil T)) srt2:(2010-2014) pers:(Dermitzakis Emmanouil T.) mspu:(article) >
Reproducibility of ...
Reproducibility of high-throughput mRNA and small RNA sequencing across laboratories
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't Hoen, Peter A C (author)
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Friedländer, Marc R (author)
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- Almlöf, Jonas (author)
- Uppsala universitet,Molekylär medicin,Science for Life Laboratory, SciLifeLab
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Sammeth, Michael (author)
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Pulyakhina, Irina (author)
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Anvar, Seyed Yahya (author)
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Laros, Jeroen F J (author)
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Buermans, Henk P J (author)
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- Karlberg, Olof (author)
- Uppsala universitet,Molekylär medicin,Science for Life Laboratory, SciLifeLab
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- Brännvall, Mathias (author)
- Uppsala universitet,Molekylär medicin,Science for Life Laboratory, SciLifeLab
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den Dunnen, Johan T (author)
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van Ommen, Gert-Jan B (author)
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Gut, Ivo G (author)
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Guigó, Roderic (author)
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Estivill, Xavier (author)
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- Syvänen, Ann-Christine (author)
- Uppsala universitet,Molekylär medicin,Science for Life Laboratory, SciLifeLab
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Dermitzakis, Emmanouil T (author)
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Lappalainen, Tuuli (author)
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(creator_code:org_t)
- 2013-11-01
- 2013
- English.
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In: Nature Biotechnology. - : Springer Science and Business Media LLC. - 1087-0156 .- 1546-1696. ; 31:11, s. 1015-1022
- Related links:
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https://urn.kb.se/re...
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https://doi.org/10.1...
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Abstract
Subject headings
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- RNA sequencing is an increasingly popular technology for genome-wide analysis of transcript sequence and abundance. However, understanding of the sources of technical and interlaboratory variation is still limited. To address this, the GEUVADIS consortium sequenced mRNAs and small RNAs of lymphoblastoid cell lines of 465 individuals in seven sequencing centers, with a large number of replicates. The variation between laboratories appeared to be considerably smaller than the already limited biological variation. Laboratory effects were mainly seen in differences in insert size and GC content and could be adequately corrected for. In small-RNA sequencing, the microRNA (miRNA) content differed widely between samples owing to competitive sequencing of rRNA fragments. This did not affect relative quantification of miRNAs. We conclude that distributing RNA sequencing among different laboratories is feasible, given proper standardization and randomization procedures. We provide a set of quality measures and guidelines for assessing technical biases in RNA-seq data.
Subject headings
- NATURVETENSKAP -- Biologi -- Genetik (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Genetics (hsv//eng)
- NATURVETENSKAP -- Biologi -- Bioinformatik och systembiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Bioinformatics and Systems Biology (hsv//eng)
- MEDICIN OCH HÄLSOVETENSKAP -- Medicinska och farmaceutiska grundvetenskaper -- Medicinsk genetik (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Basic Medicine -- Medical Genetics (hsv//eng)
Keyword
- Genetics
- Genetik
Publication and Content Type
- ref (subject category)
- art (subject category)
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- By the author/editor
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't Hoen, Peter A ...
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Friedländer, Mar ...
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Almlöf, Jonas
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Sammeth, Michael
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Pulyakhina, Irin ...
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Anvar, Seyed Yah ...
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show more...
-
Laros, Jeroen F ...
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Buermans, Henk P ...
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Karlberg, Olof
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Brännvall, Mathi ...
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den Dunnen, Joha ...
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van Ommen, Gert- ...
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Gut, Ivo G
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Guigó, Roderic
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Estivill, Xavier
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Syvänen, Ann-Chr ...
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Dermitzakis, Emm ...
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Lappalainen, Tuu ...
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- About the subject
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
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and Genetics
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
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and Bioinformatics a ...
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- MEDICAL AND HEALTH SCIENCES
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MEDICAL AND HEAL ...
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and Basic Medicine
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and Medical Genetics
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Nature Biotechno ...
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Uppsala University