3' tag digital gene expression profiling of human brain and universal reference RNA using Illumina Genome Analyzer.

ABSTRACT:

Background

Massive parallel sequencing has the potential to replace microarrays as the method for transcriptome profiling. Currently there are two protocols: full-length RNA sequencing (RNA-SEQ) and 3'-tag digital gene expression (DGE). In this preliminary effort, we evaluated the 3' DGE approach using two reference RNA samples from the MicroArray Quality Control Consortium (MAQC).

Results

Using Brain RNA sample from multiple runs, we demonstrated that the transcript profiles from 3' DGE were highly reproducible between technical and biological replicates from libraries constructed by the same lab and even by different labs, and between two generations of Illumina's Genome Analyzers. Approximately 65% of all sequence reads mapped to mitochondrial genes, ribosomal RNAs, and c

SUBMITTER: Asmann YW 

PROVIDER: S-EPMC2781828 | biostudies-literature | 2009 Nov

REPOSITORIES: biostudies-literature