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Your search keyword '"Isaac A. Babarinde"' showing total 5 results
Start Over Author "Isaac A. Babarinde" Publisher nature portfolio
5 results on '"Isaac A. Babarinde"'

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

Author

Jiangping He, Isaac A. Babarinde, Li Sun, Shuyang Xu, Ruhai Chen, Junjie Shi, Yuanjie Wei, Yuhao Li, Gang Ma, Qiang Zhuang, Andrew P. Hutchins, and Jiekai Chen

Subjects
Science
Abstract

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
2021
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2. JMJD3 acts in tandem with KLF4 to facilitate reprogramming to pluripotency

Author

Yinghua Huang, Hui Zhang, Lulu Wang, Chuanqing Tang, Xiaogan Qin, Xinyu Wu, Meifang Pan, Yujia Tang, Zhongzhou Yang, Isaac A. Babarinde, Runxia Lin, Guanyu Ji, Yiwei Lai, Xueting Xu, Jianbin Su, Xue Wen, Takashi Satoh, Tanveer Ahmed, Vikas Malik, Carl Ward, Giacomo Volpe, Lin Guo, Jinlong Chen, Li Sun, Yingying Li, Xiaofen Huang, Xichen Bao, Fei Gao, Baohua Liu, Hui Zheng, Ralf Jauch, Liangxue Lai, Guangjin Pan, Jiekai Chen, Giuseppe Testa, Shizuo Akira, Jifan Hu, Duanqing Pei, Andrew P. Hutchins, Miguel A. Esteban, and Baoming Qin

Subjects
Science
Abstract

Previous work suggested that histone demethylase JMJD3 is detrimental to somatic cell reprogramming. Here, the authors show that while JMJD3 has a context-independent detrimental effect on early stages of reprogramming, during late stages it activates epithelial and pluripotency genes together with Klf4.

Published
2020
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3. An alternative CTCF isoform antagonizes canonical CTCF occupancy and changes chromatin architecture to promote apoptosis

Author

Jiao Li, Kaimeng Huang, Gongcheng Hu, Isaac A. Babarinde, Yaoyi Li, Xiaotao Dong, Yu-Sheng Chen, Liping Shang, Wenjing Guo, Junwei Wang, Zhaoming Chen, Andrew P. Hutchins, Yun-Gui Yang, and Hongjie Yao

Subjects
Science
Abstract

CTCF plays key roles in gene regulation, chromatin insulation and organizing the higher-order chromatin architecture of mammalian genomes. Here the authors investigate the function an alternatively spliced shorter CTCF isoform, finding that this isoform antagonizes canonical CTCF occupancy and changes chromatin architecture to promote apoptosis.

Published
2019
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4. Transposable elements are regulated by context-specific patterns of chromatin marks in mouse embryonic stem cells

Author

Jiangping He, Xiuling Fu, Meng Zhang, Fangfang He, Wenjuan Li, Mazid Md. Abdul, Jianguo Zhou, Li Sun, Chen Chang, Yuhao Li, He Liu, Kaixin Wu, Isaac A. Babarinde, Qiang Zhuang, Yuin-Han Loh, Jiekai Chen, Miguel A. Esteban, and Andrew P. Hutchins

Subjects
Science
Abstract

Transposable elements (TEs) fulfill essential but poorly understood roles in genome organization and gene expression control. Here the authors show that the regulation of TEs occurs through overlapping epigenetic mechanisms that control the expression and chromatin signatures at TEs.

Published
2019
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5. An alternative CTCF isoform antagonizes canonical CTCF occupancy and changes chromatin architecture to promote apoptosis

Author

Kaimeng Huang, Yaoyi Li, Junwei Wang, Yu-Sheng Chen, Isaac A. Babarinde, Andrew P. Hutchins, Hongjie Yao, Gongcheng Hu, Jiao Li, Xiaotao Dong, Yun-Gui Yang, Zhaoming Chen, Wenjing Guo, and Liping Shang

Subjects
0301 basic medicine, Gene isoform, CCCTC-Binding Factor, Science, General Physics and Astronomy, Apoptosis, 02 engineering and technology, Biology, Binding, Competitive, General Biochemistry, Genetics and Molecular Biology, X-inactivation, Article, 03 medical and health sciences, Exon, Humans, Protein Isoforms, lcsh:Science, Enhancer, Regulation of gene expression, Multidisciplinary, Cohesin, General Chemistry, 021001 nanoscience & nanotechnology, Chromatin, Cell biology, Alternative Splicing, 030104 developmental biology, HEK293 Cells, CTCF, lcsh:Q, 0210 nano-technology, HeLa Cells
Abstract

CTCF plays key roles in gene regulation, chromatin insulation, imprinting, X chromosome inactivation and organizing the higher-order chromatin architecture of mammalian genomes. Previous studies have mainly focused on the roles of the canonical CTCF isoform. Here, we explore the functions of an alternatively spliced human CTCF isoform in which exons 3 and 4 are skipped, producing a shorter isoform (CTCF-s). Functionally, we find that CTCF-s competes with the genome binding of canonical CTCF and binds a similar DNA sequence. CTCF-s binding disrupts CTCF/cohesin binding, alters CTCF-mediated chromatin looping and promotes the activation of IFI6 that leads to apoptosis. This effect is caused by an abnormal long-range interaction at the IFI6 enhancer and promoter. Taken together, this study reveals a non-canonical function for CTCF-s that antagonizes the genomic binding of canonical CTCF and cohesin, and that modulates chromatin looping and causes apoptosis by stimulating IFI6 expression., CTCF plays key roles in gene regulation, chromatin insulation and organizing the higher-order chromatin architecture of mammalian genomes. Here the authors investigate the function an alternatively spliced shorter CTCF isoform, finding that this isoform antagonizes canonical CTCF occupancy and changes chromatin architecture to promote apoptosis.

Published
2019

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