SCALE: modeling allele-specific gene expression by single-cell RNA sequencing.

Abstract:

:Allele-specific expression is traditionally studied by bulk RNA sequencing, which measures average expression across cells. Single-cell RNA sequencing allows the comparison of expression distribution between the two alleles of a diploid organism and the characterization of allele-specific bursting. Here, we propose SCALE to analyze genome-wide allele-specific bursting, with adjustment of technical variability. SCALE detects genes exhibiting allelic differences in bursting parameters and genes whose alleles burst non-independently. We apply SCALE to mouse blastocyst and human fibroblast cells and find that cis control in gene expression overwhelmingly manifests as differences in burst frequency.

journal_name

Genome Biol

journal_title

Genome biology

authors

Jiang Y,Zhang NR,Li M

doi

10.1186/s13059-017-1200-8

subject

Has Abstract

pub_date

2017-04-26 00:00:00

pages

74

issue

1

eissn

1474-7596

issn

1474-760X

pii

10.1186/s13059-017-1200-8

journal_volume

18

pub_type

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