Increasing gene discovery and coverage using RNA-seq of globin RNA reduced porcine blood samples.

ABSTRACT:

Background

Transcriptome analysis of porcine whole blood has several applications, which include deciphering genetic mechanisms for host responses to viral infection and vaccination. The abundance of alpha- and beta-globin transcripts in blood, however, impedes the ability to cost-effectively detect transcripts of low abundance. Although protocols exist for reduction of globin transcripts from human and mouse/rat blood, preliminary work demonstrated these are not useful for porcine blood Globin Reduction (GR). Our objectives were to develop a porcine specific GR protocol and to evaluate the GR effects on gene discovery and sequence read coverage in RNA-sequencing (RNA-seq) experiments.

Results

A GR protocol for porcine blood samples was developed using RNase H with antisense

SUBMITTER: Choi I 

PROVIDER: S-EPMC4230834 | biostudies-literature | 2014 Nov

REPOSITORIES: biostudies-literature