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在谷歌云平台上使用全基因组二硫酸盐测序数据分析学习模块

Yujia Qin¹, Angela Maggio², Dale Hawkins³

¹Department of Quantitative Health Sciences, John A. Burns School of Medicine, University of Hawaii at Manoa, 651 Ilalo Street, Honolulu, HI 96813, United States.

Briefings in bioinformatics

|July 23, 2024

概括

本研究介绍了使用云计算进行全基因组二硫酸盐测序 (WGBS) 数据分析的交互式学习模块. 它提高了对表观基因组研究工具的可访问性,并加速了该领域的进步.

科学领域:

表观遗传学和基因组学
生物信息学和计算生物学
教育技术的教育技术

背景情况:

全基因组双硫酸盐测序 (WGBS) 对于理解DNA甲基化模式和表观遗传调节至关重要.
分析大型WGBS数据集需要大量的计算资源和专业知识.
云计算为复杂的基因组数据分析提供可扩展的解决方案.

研究的目的:

开发一个交互式学习模块,用于全基因组二硫酸盐测序 (WGBS) 数据分析.
为了促进基于云的工具的使用,特别是谷歌云平台上的WGBS数据.
提高云计算在表观遗传学研究中的可访问性和采用性.

主要方法:

开发一个资源模块,集成到NIGMS沙盒中,用于基于云的学习平台.
使用基于云的工具,如谷歌云存储,Vertex AI笔记本和谷歌批量.
为WGBS数据预处理和差异甲基化分析提供逐步教程.

主要成果:

该模块为WGBS数据分析提供交互式学习,涵盖预处理和差异甲基化识别.
展示了使用云基础设施处理大型数据集的简化工作流程.
该模块将WGBS分析与云资源利用相结合,加深了用户的理解.

结论:

开发的模块增强了用于表观基因组研究的云计算的可访问性.
它旨在通过简化WGBS数据分析来加速表观遗传学的进步.
该学习模块支持批量和单细胞ATAC-seq数据分析,扩大其实用性.

关键词:

通过DNA甲基化.谷歌云平台是谷歌的云平台.这是WGBS的WGBS.生物信息学教育的教育.云计算是云计算中的一个.表观遗传学是指表观遗传学.

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