Identifying transposable element expression dynamics and heterogeneity during development at the single-cell level with a processing pipeline scTE

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

doi:10.1038/s41467-021-21808-x

Nature Communications (Mar 2021)

Identifying transposable element expression dynamics and heterogeneity during development at the single-cell level with a processing pipeline scTE

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

Affiliations

Jiangping He: Center for Cell Lineage and Atlas (CCLA), Bioland Laboratory (Guangzhou Regenerative Medicine and Health Guangdong Laboratory)
Isaac A. Babarinde: Department of Biology, Southern University of Science and Technology
Li Sun: Department of Biology, Southern University of Science and Technology
Shuyang Xu: Key Laboratory of Regenerative Biology of the Chinese Academy of Sciences and Guangdong Provincial Key Laboratory of Stem Cell and Regenerative Medicine, Guangzhou Institutes of Biomedicine and Health, Chinese Academy of Sciences
Ruhai Chen: Key Laboratory of Regenerative Biology of the Chinese Academy of Sciences and Guangdong Provincial Key Laboratory of Stem Cell and Regenerative Medicine, Guangzhou Institutes of Biomedicine and Health, Chinese Academy of Sciences
Junjie Shi: Key Laboratory of Regenerative Biology of the Chinese Academy of Sciences and Guangdong Provincial Key Laboratory of Stem Cell and Regenerative Medicine, Guangzhou Institutes of Biomedicine and Health, Chinese Academy of Sciences
Yuanjie Wei: Center for Cell Lineage and Atlas (CCLA), Bioland Laboratory (Guangzhou Regenerative Medicine and Health Guangdong Laboratory)
Yuhao Li: Department of Biology, Southern University of Science and Technology
Gang Ma: Department of Biology, Southern University of Science and Technology
Qiang Zhuang: Department of Biology, Southern University of Science and Technology
Andrew P. Hutchins: Department of Biology, Southern University of Science and Technology
Jiekai Chen: Center for Cell Lineage and Atlas (CCLA), Bioland Laboratory (Guangzhou Regenerative Medicine and Health Guangdong Laboratory)

DOI: https://doi.org/10.1038/s41467-021-21808-x
Journal volume & issue: Vol. 12, no. 1
pp. 1 – 14

Abstract

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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

Published in Nature Communications

ISSN: 2041-1723 (Online)
Publisher: Nature Portfolio
Country of publisher: United Kingdom
LCC subjects: Science
Website: https://www.nature.com/ncomms/

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