Journal article

Sierra: discovery of differential transcript usage from polyA-captured single-cell RNA-seq data

Ralph Patrick, David Humphreys, Vaibhao Janbandhu, Alicia Oshlack, Joshua WK Ho, Richard Harvey, Kitty Lo

Published : 2019

Abstract

High-throughput single-cell RNA-seq (scRNA-seq) is a powerful tool for studying gene expression in single cells. Most current scRNA-seq bioinformatics tools focus on analysing overall expression levels, largely ignoring alternative mRNA isoform expression. We present a computational pipeline, Sierra, that readily detects differential transcript usage from data generated by commonly used polyA-captured scRNA-seq technology. We validate Sierra by comparing cardiac scRNA-seq cell-types to bulk RNA-seq of matched populations, finding significant overlap in differential transcripts. Sierra detects differential transcript usage across human peripheral blood mononuclear cells and the Tabula Muris, ..

View full abstract

University of Melbourne Researchers

Citation metrics