Analysis of ChIP-Seq and RNA-Seq Data with BioWardrobe.
Analysis of ChIP-Seq and RNA-Seq Data with BioWardrobe.
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使用 BioWardrobe 分析 ChIP-Seq 和 RNA-Seq 数据。
DOI：
10.1007/978-1-4939-7834-2_17
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发表时间：
2018
期刊：
影响因子：
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通讯作者：
Barski,Artem
中科院分区：
文献类型：
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作者：
Vallabh,Sushmitha;Kartashov,AndreyV;Barski,Artem
ChIP-Seq、RNA-Seq和其他基于下一代测序的方法产生的大量信息需要计算数据分析。然而，进行这些实验的生物学家往往缺乏生物信息学方面的培训。BioWardrobe旨在通过提供方便的用户界面和自动化常规数据处理步骤来弥合这一差距。该协议详细说明了使用BioWardrobe识别和可视化芯片序列峰、计算RPKM、执行差异结合或基因表达分析以及创建曲线图和热图。我们具体描述了如何使用BioWardrobe的质量控制措施对基于NGS的实验进行故障排除。
The massive amount of information produced by ChIP-Seq, RNA-Seq, and other next-generation sequencing-based methods requires computational data analysis. However, biologists performing these experiments often lack training in bioinformatics. BioWardrobe aims to bridge this gap by providing a convenient user interface and by automating routine data-processing steps. This protocol details the use of BioWardrobe for identifying and visualizing ChIP-Seq peaks, calculating RPKMs, performing differential binding or gene expression analysis, and creating plots and heat maps. We specifically describe how to use BioWardrobe’s quality control measures for troubleshooting NGS-based experiments.