Quantitative gene profiling of long noncoding RNAs with targeted RNA sequencing

Nat Methods. 2015 Apr;12(4):339-42. doi: 10.1038/nmeth.3321. Epub 2015 Mar 9.

Abstract

We compared quantitative RT-PCR (qRT-PCR), RNA-seq and capture sequencing (CaptureSeq) in terms of their ability to assemble and quantify long noncoding RNAs and novel coding exons across 20 human tissues. CaptureSeq was superior for the detection and quantification of genes with low expression, showed little technical variation and accurately measured differential expression. This approach expands and refines previous annotations and simultaneously generates an expression atlas.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Gene Expression Profiling*
  • Humans
  • K562 Cells
  • Polymerase Chain Reaction
  • RNA / blood
  • RNA / chemistry
  • RNA / genetics*
  • RNA, Long Noncoding / genetics*
  • Sequence Analysis / methods*

Substances

  • RNA, Long Noncoding
  • RNA

Associated data

  • GEO/GSE52503
  • GEO/GSE61474