Single-cell RNA-sequencing of differentiating iPS cells reveals dynamic genetic effects on gene expression.

Abstract:

:Recent developments in stem cell biology have enabled the study of cell fate decisions in early human development that are impossible to study in vivo. However, understanding how development varies across individuals and, in particular, the influence of common genetic variants during this process has not been characterised. Here, we exploit human iPS cell lines from 125 donors, a pooled experimental design, and single-cell RNA-sequencing to study population variation of endoderm differentiation. We identify molecular markers that are predictive of differentiation efficiency of individual lines, and utilise heterogeneity in the genetic background across individuals to map hundreds of expression quantitative trait loci that influence expression dynamically during differentiation and across cellular contexts.

journal_name

Nat Commun

journal_title

Nature communications

authors

Cuomo ASE,Seaton DD,McCarthy DJ,Martinez I,Bonder MJ,Garcia-Bernardo J,Amatya S,Madrigal P,Isaacson A,Buettner F,Knights A,Natarajan KN,HipSci Consortium.,Vallier L,Marioni JC,Chhatriwala M,Stegle O

doi

10.1038/s41467-020-14457-z

subject

Has Abstract

pub_date

2020-02-10 00:00:00

pages

810

issue

1

issn

2041-1723

pii

10.1038/s41467-020-14457-z

journal_volume

11

pub_type

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