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Using BRIE to Detect and Analyze Splicing Isoforms in scRNA-Seq Data

Research output: Chapter in Book/Report/Conference proceedingChapter

Original languageEnglish
Title of host publicationComputational Methods for Single-Cell Data Analysis
EditorsGuo-Cheng Yuan
Place of PublicationNew York, NY
PublisherSpringer New York LLC
Pages175-185
Number of pages11
ISBN (Print)978-1-4939-9057-3
DOIs
Publication statusPublished - 2019

Publication series

NameMethods in Molecular Biology
Volume1935

Abstract

Single-cell RNA-seq (scRNA-seq) provides a comprehensive measurement of stochasticity in transcription, but the limitations of the technology have prevented its application to dissect variability in RNA processing events such as splicing. In this chapter, we review the challenges in splicing isoform quantification in scRNA-seq data and discuss BRIE (Bayesian regression for isoform estimation), a recently proposed Bayesian hierarchical model which resolves these problems by learning an informative prior distribution from sequence features. We illustrate the usage of BRIE with a case study on 130 mouse cells during gastrulation.

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