IDEAS: individual level differential expression analysis for single-cell RNA-seq data.

Details

Serval ID
serval:BIB_B48AF13F6F91
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
IDEAS: individual level differential expression analysis for single-cell RNA-seq data.
Journal
Genome biology
Author(s)
Zhang M., Liu S., Miao Z., Han F., Gottardo R., Sun W.
ISSN
1474-760X (Electronic)
ISSN-L
1474-7596
Publication state
Published
Issued date
24/01/2022
Peer-reviewed
Oui
Volume
23
Number
1
Pages
33
Language
english
Notes
Publication types: Journal Article ; Research Support, N.I.H., Extramural
Publication Status: epublish
Abstract
We consider an increasingly popular study design where single-cell RNA-seq data are collected from multiple individuals and the question of interest is to find genes that are differentially expressed between two groups of individuals. Towards this end, we propose a statistical method named IDEAS (individual level differential expression analysis for scRNA-seq). For each gene, IDEAS summarizes its expression in each individual by a distribution and then assesses whether these individual-specific distributions are different between two groups of individuals. We apply IDEAS to assess gene expression differences of autism patients versus controls and COVID-19 patients with mild versus severe symptoms.
Keywords
Autistic Disorder/genetics, Autistic Disorder/metabolism, Autistic Disorder/pathology, COVID-19/genetics, COVID-19/metabolism, COVID-19/pathology, COVID-19/virology, Case-Control Studies, Gene Expression Profiling, Gene Expression Regulation, Humans, Microglia/metabolism, Microglia/pathology, Nerve Tissue Proteins/classification, Nerve Tissue Proteins/genetics, Nerve Tissue Proteins/metabolism, SARS-CoV-2/pathogenicity, Sequence Analysis, RNA/methods, Severity of Illness Index, Single-Cell Analysis/methods, Software, Whole Exome Sequencing, Differential expression, IDEAS, scRNA-seq
Pubmed
Web of science
Open Access
Yes
Create date
31/01/2022 11:19
Last modification date
06/05/2022 6:35
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