Li Lishi, An Yunyun, Ma Li, Yang Mengqi, Yuan Pengxiang, Liu Xiaojian, Jin Xin, Zhao Yu, Zhang Songfa, Hong Xin, Sun Kun
School of Chemical Biology and Biotechnology, Peking University Shenzhen Graduate School, Shenzhen 518055, China.
Institute of Cancer Research, Shenzhen Bay Laboratory, Shenzhen 518132, China.
Comput Struct Biotechnol J. 2022 Mar 10;20:1271-1276. doi: 10.1016/j.csbj.2022.03.005. eCollection 2022.
DNA methylation is an important epigenetic regulator that plays crucial roles in various biological processes. Recent developments in experimental approaches and dramatic expansion of sequencing capacities have imposed new challenges in the analysis of large-scale, cross-species DNA methylation data. Hence, user-friendly toolkits with high usability and performance are in urgent need. In this work, we present Msuite2, an easy-to-use, all-in-one, and universal toolkit for DNA methylation data analysis and visualization with high flexibility, usability, and performance. Msuite2 is among the fastest tools in read alignment (in particular, it runs as much as 5x faster than its predecessor, Msuite1) with low computing resource usage. In addition, Msuite2 shows both balanced and high performance in terms of mapping efficiency and accuracy, demonstrating high potential to facilitate the investigation and application of large-scale DNA methylation analysis in various biomedical studies. Msuite2 is freely available at https://github.com/hellosunking/Msuite2/.
DNA甲基化是一种重要的表观遗传调控因子，在各种生物学过程中发挥着关键作用。实验方法的最新进展以及测序能力的大幅扩展，给大规模跨物种DNA甲基化数据的分析带来了新挑战。因此，迫切需要具有高可用性和高性能的用户友好型工具包。在这项工作中，我们展示了Msuite2，这是一个易于使用的一体化通用工具包，用于DNA甲基化数据分析和可视化，具有高度的灵活性、可用性和性能。Msuite2是读段比对速度最快的工具之一（特别是，它的运行速度比其前身Msuite1快5倍之多），且计算资源使用量低。此外，Msuite2在映射效率和准确性方面表现出平衡且高性能，显示出在各种生物医学研究中促进大规模DNA甲基化分析的研究和应用的巨大潜力。Msuite2可在https://github.com/hellosunking/Msuite2/上免费获取。
