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SCALE: modeling allele-specific gene expression by single-cell RNA sequencing
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SCALE: modeling allele-specific gene expression by single-cell RNA sequencing
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Journal Article
SCALE: modeling allele-specific gene expression by single-cell RNA sequencing
2017
Overview
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.
Publisher
BioMed Central,Springer Nature B.V,BMC
Subject
/ Alleles
/ Animal Genetics and Genomics
/ Animals
/ Biomedical and Life Sciences
/ cis and trans transcriptional control
/ Diploidy
/ DNA
/ Gene Expression Profiling - methods
/ Genomes
/ Humans
/ Kinetics
/ Method
/ Mice
/ Microbial Genetics and Genomics
/ RNA
/ Sequence Analysis, RNA - methods
