Identifying transposable element expression dynamics and heterogeneity during development at the single-cell level with a processing pipeline scTE
How transposable elements (TE) contribute to cell fate changes is unclear. Here, the authors generate a pipeline to quantify TE expression from single cell data. They show the dynamic expression of TEs from gastrulation to somatic cell reprogramming and human disease
Main Authors: | Jiangping He, Isaac A. Babarinde, Li Sun, Shuyang Xu, Ruhai Chen, Junjie Shi, Yuanjie Wei, Yuhao Li, Gang Ma, Qiang Zhuang, Andrew P. Hutchins, Jiekai Chen |
---|---|
Format: | Article |
Language: | English |
Published: |
Nature Publishing Group
2021-03-01
|
Series: | Nature Communications |
Online Access: | https://doi.org/10.1038/s41467-021-21808-x |
Similar Items
-
Transposable elements are regulated by context-specific patterns of chromatin marks in mouse embryonic stem cells
by: Jiangping He, et al.
Published: (2019-01-01) -
Single cells and transposable element heterogeneity in stem cells and development
by: Andrew P. Hutchins
Published: (2021-07-01) -
Computational Methods for Mapping, Assembly and Quantification for Coding and Non-coding Transcripts
by: Isaac A. Babarinde, et al.
Published: (2019-01-01) -
The DAWGPAWS pipeline for the annotation of genes and transposable elements in plant genomes
by: Bennetzen Jeffrey L, et al.
Published: (2009-06-01) -
Benchmarking transposable element annotation methods for creation of a streamlined, comprehensive pipeline
by: Shujun Ou, et al.
Published: (2019-12-01)