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<p>HiChIP enables cost-effective and high-resolution profiling of chromatin loops. To leverage the increasing number of HiChIP datasets, we develop Loop Catalog (<a href="https://loopcatalog.lji.org">https://loopcatalog.lji.org</a>), a web-based database featuring loop calls from over 1000 distinct human and mouse HiChIP samples from 152 studies plus 44 high-resolution Hi-C samples. We demonstrate its utility for interpreting GWAS and eQTL variants through SNP-to-gene linking, identifying enriched sequence motifs and motif pairs, and generating regulatory networks and 2D representations of chromatin structure. Our catalog spans more than 4.19M unique loops, and with embedded analysis modules,&#xa0;constitutes an important resource for the field.</p>

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Loop Catalog: a comprehensive HiChIP database of human and mouse samples

  • 期刊论文

  • 出版模式：

    开放获取

  • 发表日期：

    2025年6月20日

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  • Joaquin Reyna,
  • Kyra Fetter,
  • Romeo Ignacio,
  • Cemil Can Ali Marandi,
  • Astoria Ma,
  • Nikhil Rao,
  • Zichen Jiang,
  • Daniela Salgado Figueroa,
  • Sourya Bhattacharyya,
  • Ferhat Ay

摘要

HiChIP enables cost-effective and high-resolution profiling of chromatin loops. To leverage the increasing number of HiChIP datasets, we develop Loop Catalog (https://loopcatalog.lji.org), a web-based database featuring loop calls from over 1000 distinct human and mouse HiChIP samples from 152 studies plus 44 high-resolution Hi-C samples. We demonstrate its utility for interpreting GWAS and eQTL variants through SNP-to-gene linking, identifying enriched sequence motifs and motif pairs, and generating regulatory networks and 2D representations of chromatin structure. Our catalog spans more than 4.19M unique loops, and with embedded analysis modules, constitutes an important resource for the field.