ppHiC：在ProteinPaint网页平台上进行Hi-C结果的交互式探索
ppHiC: Interactive exploration of Hi-C results on the ProteinPaint web portal
DOI 原文链接
用sci-hub下载
如无法下载，请从 Sci-Hub 选择可用站点尝试。
影响因子:4.1
分区:生物学3区 / 生化与分子生物学3区
发表日期:2024 Dec
作者:
Akanksha Rajput, Colleen Reilly, Airen Zaldivar Peraza, Jian Wang, Edgar Sioson, Gavriel Matt, Robin Paul, Congyu Lu, Aleksandar Acic, Karishma Gangwani, Xin Zhou
DOI:
10.1016/j.csbj.2024.09.020
摘要
ProteinPaint的Hi-C工具（ppHiC）促进了Hi-C数据的网页可视化和协作探索，这是理解三维基因组结构的重要资源。ppHiC使研究人员能够在无需高深计算技能的情况下，轻松在网页浏览器中分析大型Hi-C数据集。该平台兼容多版本的Hi-C数据，具有高度可定制的界面，包括配置面板，用于精确调节关键的可视化参数。该工具的交互式功能提供多种视图，从全基因组景观到双点间详细的相互作用，所有内容都集中在一个集成环境中。本文展示了如何利用ppHiC可视化神经母细胞瘤中染色质构象景观的变化，从而加深对该癌症中基因组重排的理解。
Abstract
The ProteinPaint Hi-C tool (ppHiC) facilitates web-based visualization and collaborative exploration of Hi-C data, a vital resource for understanding three-dimensional genomic structures. ppHiC allows researchers to easily analyze large Hi-C datasets on a web browser without requiring the computational expertise that has heretofore limited access to this complex genomic data. The platform is compatible with multiple Hi-C data versions and boasts a highly customizable interface, including a configuration panel for the precise adjustment of key visualization parameters. The tool's interactive features offer a broad range of views, from whole-genome landscapes to detailed interactions between pairs of loci, that are accessible within a single, integrated environment. Here, we demonstrate how using ppHiC to visualize an altered chromatin conformational landscape in neuroblastoma can inform understanding of the genomic rearrangements in this cancer.