Chromatin analysis

Chromatin analysis is the study of the structure or function of chromatin. Chromatin is made up of proteins (mainly histones) and genomic DNA packed inside the nuclei of eukaryotic cells; its architecture and chemical modifications affect genome structure, integrity and gene regulation.

Latest Research and Reviews

  • Reviews |

    For appropriate control of gene expression, enhancers must communicate with the right target genes at the right time, typically over large genomic distances. In this Review, Schoenfelder and Fraser discuss our latest understanding of long-range enhancer–promoter crosstalk, including target-gene specificity, interaction dynamics, protein and RNA architects of interactions, roles of 3D genome organization and the pathological consequences of regulatory rewiring.

    • Stefan Schoenfelder
    •  & Peter Fraser
  • Research | | open

    Understanding gene regulation will require mapping specific chromain features in a small number of cells at high resolution. Here the authors describe CUT&Tag, which uses antibody-mediated tethering of Tn5 transposase to a chromatin protein to generate high resolution libraries.

    • Hatice S. Kaya-Okur
    • , Steven J. Wu
    • , Christine A. Codomo
    • , Erica S. Pledger
    • , Terri D. Bryson
    • , Jorja G. Henikoff
    • , Kami Ahmad
    •  & Steven Henikoff
  • Research | | open

    Heterogeneity in gene expression and epigenetic states exists across individual cells. Here, the authors develop scCAT-seq, a technique for simultaneously performing ATAC-seq and RNA-seq within the same single cell.

    • Longqi Liu
    • , Chuanyu Liu
    • , Andrés Quintero
    • , Liang Wu
    • , Yue Yuan
    • , Mingyue Wang
    • , Mengnan Cheng
    • , Lizhi Leng
    • , Liqin Xu
    • , Guoyi Dong
    • , Rui Li
    • , Yang Liu
    • , Xiaoyu Wei
    • , Jiangshan Xu
    • , Xiaowei Chen
    • , Haorong Lu
    • , Dongsheng Chen
    • , Quanlei Wang
    • , Qing Zhou
    • , Xinxin Lin
    • , Guibo Li
    • , Shiping Liu
    • , Qi Wang
    • , Hongru Wang
    • , J. Lynn Fink
    • , Zhengliang Gao
    • , Xin Liu
    • , Yong Hou
    • , Shida Zhu
    • , Huanming Yang
    • , Yunming Ye
    • , Ge Lin
    • , Fang Chen
    • , Carl Herrmann
    • , Roland Eils
    • , Zhouchun Shang
    •  & Xun Xu
  • Reviews |

    Chromatin accessibility comprises the positions, compaction and dynamics of nucleosomes, as well as the occupancy of DNA by other proteins such as transcription factors. In this Review, the authors discuss diverse methods for characterizing chromatin accessibility, how accessibility is determined and remodelled in cells and the regulatory roles of accessibility in gene expression and development.

    • Sandy L. Klemm
    • , Zohar Shipony
    •  & William J. Greenleaf

News and Comment