Volume 33, No 1, Jan 2023

ISSN: 1001-0602 
EISSN: 1748-7838 2018 
impact factor 17.848* 
(Clarivate Analytics, 2019)

Volume 33 Issue 1, January 2023: 83-86

LETTERS TO THE EDITOR

scNanoATAC-seq: a long-read single-cell ATAC sequencing method to detect chromatin accessibility and genetic variants simultaneously within an individual cell

Yuqiong Hu^1,2,† , Zhenhuan Jiang^1,2,3,† , Kexuan Chen^1,2,† , Zhangxian Zhou^1,2,4 , Xin Zhou⁵ , Yan Wang¹ , Jingwei Yang^1,2 , Bo Zhang^1,2 , Lu Wen^1,2 , Fuchou Tang^1,2,3,4,*

¹Biomedical Pioneering Innovation Center, School of Life Sciences, Peking University, Beijing, China
²Beijing Advanced Innovation Center for Genomics (ICG), Ministry of Education Key Laboratory of Cell Proliferation and Differentiation, Beijing, China
³PKU-TsinghuaNIBS Graduate Program, Academy for Advanced Interdisciplinary Studies, Peking University, Beijing, China
⁴Peking-Tsinghua Center for Life Sciences, Academy for Advanced Interdisciplinary Studies, Peking University, Beijing, China
⁵Department of General Surgery, Third Hospital, Peking University, Beijing, China
^†These authors contributed equally: Yuqiong Hu, Zhenhuan Jiang, Kexuan Chen
Correspondence: Fuchou Tang(tangfuchou@pku.edu.cn)

Dear Editor,

The accessible chromatin regions were enriched in regulatory elements in human genome and many genetic variations associated with human diseases were identified within them.1 Single-cell assay for transposase-accessible chromatin using sequencing (scATAC-seq) on the next-generation sequencing (NGS) platform is a well-established method to detect open chromatin regions within an individual cell.2 However, there remain challenges in detection of large-scale structural variations (SVs, including insertions, deletions, duplications, inversions and translocations) and haplotype phasing from scATAC-seq data, which can be well resolved by third-generation sequencing (TGS) platform-based single-molecule long-read sequencing. To integrate advantages of long-read sequencing into scATAC-seq, we developed single-cell assay for transposase‐accessible chromatin on Nanopore sequencing platform (scNanoATAC-seq), a plate-based scATAC-seq method suitable for TGS platform (Supplementary information, Fig. S1).

https://doi.org/10.1038/s41422-022-00730-x

FULL TEXT | PDF

Browse 696