Quantifying RNA allelic ratios by microfluidic multiplex PCR and sequencing.
|Title||Quantifying RNA allelic ratios by microfluidic multiplex PCR and sequencing.|
|Publication Type||Journal Article|
|Year of Publication||2014|
|Authors||Zhang R, Li X, Ramaswami G, Smith KS, Turecki G, Montgomery SB, Li JBilly|
|Date Published||2014 Jan|
|Keywords||Alleles, Brain, DNA Barcoding, Taxonomic, DNA, Complementary, Gene Expression Profiling, Genotype, High-Throughput Nucleotide Sequencing, Humans, Multiplex Polymerase Chain Reaction, Reproducibility of Results, Reverse Transcriptase Polymerase Chain Reaction, RNA, RNA Editing, Sequence Analysis, RNA, Transcriptome|
We 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. We applied mmPCR-seq to RNA editing and allele-specific expression studies. mmPCR-seq complements RNA-seq for studying allelic variations in the transcriptome.
|Alternate Journal||Nat. Methods|
|PubMed Central ID||PMC3877737|
|Grant List||GM102484 / GM / NIGMS NIH HHS / United States |
P30 CA124435 / CA / NCI NIH HHS / United States
R01 GM102484 / GM / NIGMS NIH HHS / United States
T32 HG000044 / HG / NHGRI NIH HHS / United States