Single-cell multi-modal chromatin profiles revealing epigenetic regulations of cells in hepatocellular carcinoma

Chunqing Wang; Waidong Huang; Yu Zhong; Xuanxuan Zou; Shang Liu; Jie Li; Yunfan Sun; Kaiqian Zhou; Xi Chen; Zihao Li; Shanshan Wang; Yaling Huang; Yinqi Bai; Jianhua Yin; Xin Jin; Shiping Liu; Yue Yuan; Qiuting Deng; Miaomiao Jiang; Chuanyu Liu; Longqi Liu; Xun Xu; Liang Wu

doi:10.1002/ctm2.70000

Clinical and Translational Medicine ›› 2024, Vol. 14 ›› Issue (9) : e70000 DOI: 10.1002/ctm2.70000

RESEARCH ARTICLE

Single-cell multi-modal chromatin profiles revealing epigenetic regulations of cells in hepatocellular carcinoma

Chunqing Wang ¹^,²^,³
, Waidong Huang ¹^,²
, Yu Zhong ²
, Xuanxuan Zou ²^,³^,⁴
, Shang Liu ²^,³
, Jie Li ³
, Yunfan Sun ⁵^,⁶
, Kaiqian Zhou ⁵^,⁶
, Xi Chen ²^,³
, Zihao Li ³^,⁷
, Shanshan Wang ³
, Yaling Huang ³
, Yinqi Bai ⁸
, Jianhua Yin ³
, Xin Jin ³
, Shiping Liu ⁸
, Yue Yuan ⁵
, Qiuting Deng ¹^,⁵
, Miaomiao Jiang ²
, Chuanyu Liu ³^,⁹
, Longqi Liu ⁵
, Xun Xu ³^,^†
, Liang Wu ²^,³^,⁶^,^†

Author information +

¹. College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China

². BGI Research, Chongqing, China

³. BGI Research, Shenzhen, China

⁴. Department of Medical Laboratory, Hubei Provincial Clinical Research Center for Parkinson’s Disease, Xiangyang No.1 People’s Hospital, Hubei University of Medicine, Xiangyang, China

⁵. Department of Liver Surgery & Transplantation, Liver Cancer Institute, Zhongshan Hospital, Fudan University, and Key Laboratory of Carcinogenesis and Cancer Invasion, Ministry of Education, Shanghai, China

⁶. Zhongshan-BGI Precision Medical Center, Zhongshan Hospital, Fudan University, Shanghai, China

⁷. School of Biology and Biological Engineering, South China University of Technology, Guangzhou, China

⁸. BGI Research, Hangzhou, China

⁹. Shanxi Medical University-BGI Collaborative Center for Future Medicine, Shanxi Medical University, Taiyuan, China

xuxun@genomics.cn

wuliang@genomics.cn

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Abstract

	•scCPA-Tag offers a highly efficient and high throughput technique to simultaneously profile histone modification and chromatin accessibility within a single cell.
	•scCPA-Tag enables to uncover multiple epigenetic modification features of cellular compositions within tumor tissues.
	•scCPA-Tag facilitates the exploration of the epigenetic landscapes of heterogeneous cell types and provides the mechanisms governing gene expression regulation.

Keywords

chromatin accessibility / epigenomics / hepatocellular carcinoma / histone modifications / multiomics / single-cell sequencing

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Chunqing Wang, Waidong Huang, Yu Zhong, Xuanxuan Zou, Shang Liu, Jie Li, Yunfan Sun, Kaiqian Zhou, Xi Chen, Zihao Li, Shanshan Wang, Yaling Huang, Yinqi Bai, Jianhua Yin, Xin Jin, Shiping Liu, Yue Yuan, Qiuting Deng, Miaomiao Jiang, Chuanyu Liu, Longqi Liu, Xun Xu, Liang Wu. Single-cell multi-modal chromatin profiles revealing epigenetic regulations of cells in hepatocellular carcinoma. Clinical and Translational Medicine, 2024, 14(9): e70000 DOI:10.1002/ctm2.70000

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2024 The Author(s). Clinical and Translational Medicine published by John Wiley & Sons Australia, Ltd on behalf of Shanghai Institute of Clinical Bioinformatics.