The incredible power of RNA-Seq was initially applied primarily for complex whole transcriptome applications such as discovery of rare genes, splice junctions and gene fusions or for study of novel and less well-characterized organisms. However, as the technology is improving and costs are decreasing, RNA sequencing is now suitable to be used for simple RNA profiling (sample comparison) as well.

  1. Expression profiling is truly genome-wide – there is no need for probes based on prior sequence information.
  2. Powerful RNA-Seq technology reads every base of every transcript – this is not TAG profiling.
  3. Achieve digital transcript expression analysis – accurate quantitation of expression levels over 5 orders of magnitude of transcript abundance.