High-throughput and quantitative genome-wide messenger RNA sequencing for molecular phenotyping.

ABSTRACT:

Background

We present a genome-wide messenger RNA (mRNA) sequencing technique that converts small amounts of RNA from many samples into molecular phenotypes. It encompasses all steps from sample preparation to sequence analysis and is applicable to baseline profiling or perturbation measurements.

Results

Multiplex sequencing of transcript 3' ends identifies differential transcript abundance independent of gene annotation. We show that increasing biological replicate number while maintaining the total amount of sequencing identifies more differentially abundant transcripts.

Conclusions

This method can be implemented on polyadenylated RNA from any organism with an annotated reference genome and in any laboratory with access to Illumina sequencing.

SUBMITTER: Collins JE 

PROVIDER: S-EPMC4524448 | biostudies-literature | 2015 Aug

REPOSITORIES: biostudies-literature