Scholarlink

<p>Three-dimensional genomics methods such as Hi-C and Micro-C have uncovered chromatin loops across the genome and linked these loops to gene regulation. However, these methods only measure three-dimensional interaction probabilities on a relative scale. Here we overcome this limitation by using live-imaging data to calibrate Micro-C in mouse embryonic stem cells, thus obtaining absolute looping probabilities for 65,929 Micro-C-identified chromatin loops. We find that the looped state is generally rare, with a mean pairwise looping probability of 1.2% and a maximum of 25% across the quantified loops. On average, CTCF–CTCF loops are stronger than <i>cis</i>-regulatory loops (2.2% versus &lt;1%). Our findings can be extended to human cells with available Micro-C data under certain assumptions. Overall, we establish an approach for genome-wide absolute loop quantification and report that loops occur with low probabilities, generalizing recent live-imaging results to the whole genome.</p>

错误：搜索内容不能为空，请输入英文关键词
错误：关键词超出字数限制，请精简
高级检索

Genome-wide absolute quantification of chromatin looping

  • 期刊论文

  • 发表日期：

    2026年6月30日

查看全文
  • James M. Jusuf,
  • Jin H. Yang,
  • Jack Toppen,
  • Simon Grosse-Holz,
  • Michele Gabriele,
  • Pia Mach,
  • Ilya M. Flyamer,
  • Christoph Zechner,
  • Luca Giorgetti,
  • Leonid A. Mirny,
  • Anders S. Hansen

摘要

Three-dimensional genomics methods such as Hi-C and Micro-C have uncovered chromatin loops across the genome and linked these loops to gene regulation. However, these methods only measure three-dimensional interaction probabilities on a relative scale. Here we overcome this limitation by using live-imaging data to calibrate Micro-C in mouse embryonic stem cells, thus obtaining absolute looping probabilities for 65,929 Micro-C-identified chromatin loops. We find that the looped state is generally rare, with a mean pairwise looping probability of 1.2% and a maximum of 25% across the quantified loops. On average, CTCF–CTCF loops are stronger than cis-regulatory loops (2.2% versus <1%). Our findings can be extended to human cells with available Micro-C data under certain assumptions. Overall, we establish an approach for genome-wide absolute loop quantification and report that loops occur with low probabilities, generalizing recent live-imaging results to the whole genome.