Liu Jinjiang, Wang Kun, Yuan Yawen, Bao Guangchao, Ci Hang, Liu Mingqin, Lyu Yunpan, Tang Jingxin, Yang Jian, Cai Haoyang
Center of Growth, Metabolism, and Aging, Key Laboratory of Bio-Resources and Eco-Environment, College of Life Sciences, Sichuan University, Chengdu, Sichuan 610064, China.
Bioinformatics. 2025 Jul 1;41(7). doi: 10.1093/bioinformatics/btaf386.
Complex chromosomal rearrangements in tumors involve intricate genomic alterations that significantly affect gene function and contribute to cancer development. Identifying these events is crucial for cancer research but is often challenging due to the complexity and limitations of existing tools. We developed the Complex Chromosomal Rearrangements Resolver (CCRR), a comprehensive, reproducible, and user-friendly platform for analyzing complex rearrangements in tumors. CCRR integrates multiple SV and CNV detection tools within a Docker container environment, simplifying installation and configuration. It can be easily deployed, automating the execution and merging of results, providing high-confidence consensus SV and CNV calls, allowing researchers to efficiently analyze complex chromosomal rearrangements in tumors without extensive bioinformatics expertise. CCRR also includes a web server for one-click analysis and customized visualization.
The CCRR platform is freely available at https://www.ccrr.life. Source code and executables can be accessed at https://github.com/laslk/CCRR. An archived version is available at Zenodo: https://doi.org/10.5281/zenodo.15386513.
肿瘤中的复杂染色体重排涉及复杂的基因组改变，这些改变会显著影响基因功能并促进癌症发展。识别这些事件对于癌症研究至关重要，但由于现有工具的复杂性和局限性，往往具有挑战性。我们开发了复杂染色体重排解析器（CCRR），这是一个用于分析肿瘤中复杂重排的全面、可重复且用户友好的平台。CCRR在Docker容器环境中集成了多个SV和CNV检测工具，简化了安装和配置。它可以轻松部署，自动执行和合并结果，提供高可信度的一致性SV和CNV调用，使研究人员无需广泛的生物信息学专业知识就能高效分析肿瘤中的复杂染色体重排。CCRR还包括一个用于一键分析和定制可视化的网络服务器。
