mmPCR-seq – microfluidics-based multiplex PCR and deep sequencing

Researchers at Stanford University have developed a targeted RNA sequencing method that couples microfluidics-based multiplex PCR and deep sequencing (mmPCR-seq) to uniformly and simultaneously amplify up to 960 loci in 48 samples independently of their gene expression levels and to accurately and cost-effectively measure allelic ratios even for low-quantity or low-quality RNA samples. They applied mmPCR-seq to RNA editing and allele-specific expression studies. mmPCR-seq complements RNA-seq for studying allelic variations in the transcriptome.

rna-seq

Availability – A Perl script used to design the primers is available at http://lilab.stanford.edu/mmPCR/

Zhang R, Li X, Ramaswami G, Smith KS, Turecki G, Montgomery SB, Li JB. (2013) Quantifying RNA allelic ratios by microfluidic multiplex PCR and sequencing. Nat Methods [Epub ahead of print]. [abstract]