Comparison and calibration of transcriptome data from RNA-Seq and tiling arrays.

ABSTRACT:

Background

Tiling arrays have been the tool of choice for probing an organism's transcriptome without prior assumptions about the transcribed regions, but RNA-Seq is becoming a viable alternative as the costs of sequencing continue to decrease. Understanding the relative merits of these technologies will help researchers select the appropriate technology for their needs.

Results

Here, we compare these two platforms using a matched sample of poly(A)-enriched RNA isolated from the second larval stage of C. elegans. We find that the raw signals from these two technologies are reasonably well correlated but that RNA-Seq outperforms tiling arrays in several respects, notably in exon boundary detection and dynamic range of expression. By exploring the accuracy of sequencing as a f

SUBMITTER: Agarwal A 

PROVIDER: S-EPMC3091629 | biostudies-literature | 2010 Jun

REPOSITORIES: biostudies-literature