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Search: WFRF:(Dermitzakis Emmanouil T) > (2010-2014) > Dermitzakis Emmanouil T. > Reproducibility of ...

  • 't Hoen, Peter A C (author)

Reproducibility of high-throughput mRNA and small RNA sequencing across laboratories

  • Article/chapterEnglish2013

Publisher, publication year, extent ...

  • 2013-11-01
  • Springer Science and Business Media LLC,2013
  • printrdacarrier

Numbers

  • LIBRIS-ID:oai:DiVA.org:uu-207893
  • https://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-207893URI
  • https://doi.org/10.1038/nbt.2702DOI

Supplementary language notes

  • Language:English
  • Summary in:English

Part of subdatabase

Classification

  • Subject category:ref swepub-contenttype
  • Subject category:art swepub-publicationtype

Notes

  • 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 and genre

Added entries (persons, corporate bodies, meetings, titles ...)

  • Friedländer, Marc R (author)
  • Almlöf, JonasUppsala universitet,Molekylär medicin,Science for Life Laboratory, SciLifeLab(Swepub:uu)jonca820 (author)
  • Sammeth, Michael (author)
  • Pulyakhina, Irina (author)
  • Anvar, Seyed Yahya (author)
  • Laros, Jeroen F J (author)
  • Buermans, Henk P J (author)
  • Karlberg, OlofUppsala universitet,Molekylär medicin,Science for Life Laboratory, SciLifeLab(Swepub:uu)oka21721 (author)
  • Brännvall, MathiasUppsala universitet,Molekylär medicin,Science for Life Laboratory, SciLifeLab(Swepub:uu)mathbran (author)
  • den Dunnen, Johan T (author)
  • van Ommen, Gert-Jan B (author)
  • Gut, Ivo G (author)
  • Guigó, Roderic (author)
  • Estivill, Xavier (author)
  • Syvänen, Ann-ChristineUppsala universitet,Molekylär medicin,Science for Life Laboratory, SciLifeLab(Swepub:uu)anncsyva (author)
  • Dermitzakis, Emmanouil T (author)
  • Lappalainen, Tuuli (author)
  • Uppsala universitetMolekylär medicin (creator_code:org_t)

Related titles

  • In:Nature Biotechnology: Springer Science and Business Media LLC31:11, s. 1015-10221087-01561546-1696

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