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 |
| Journal | Nat Methods |
| Volume | 11 |
| Issue | 1 |
| Pagination | 51-4 |
| Date Published | 2014 Jan |
| ISSN | 1548-7105 |
| 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 |
| Abstract | 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. |
| DOI | 10.1038/nmeth.2736 |
| Alternate Journal | Nat. Methods |
| PubMed ID | 24270603 |
| 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 |