注册 登录  
 加关注
   显示下一条  |  关闭
温馨提示!由于新浪微博认证机制调整,您的新浪微博帐号绑定已过期,请重新绑定!立即重新绑定新浪微博》  |  关闭

wangyufeng的博客

祝愿BB 健康开心快乐每一天

 
 
 

日志

 
 

Analysis and Visualization of RNA-Seq Expression Data Using RStudio, Bioconductor, and Integrated Genome Browser  

2015-04-01 19:54:03|  分类: 生物信息分析 |  标签: |举报 |字号 订阅

  下载LOFTER 我的照片书  |

Thanks to reduced cost of sequencing and library preparation, it is now possible to conduct a well-replicated RNA-Seq study for less than a few thousand dollars. However, if unforeseen problems arise, such as insufficient sequencing depth or batch effects, the cost and time required for analysis can escalate, ultimately far exceeding that of the original experiment. Running a “mock” analysis using a well documented, published data analysis from start to finish is often a good way to learn the limitations and strengths of analysis methods, which helps to plan an experiment. Toward this end, this article describes a straightforward analysis of an RNA-Seq data set from tomato, using materials developed for the UNC Charlotte 2014 Workshop on Next-Generation Sequencing (WiNGS). For the workshop, we developed hands-on computer labs introducing experimental design, data processing, data analysis, and biological interpretation for RNA-Seq expression experiments. Here, we present a protocol for RNA-Seq data analysis taken from the workshop, focusing on data analysis using edgeR and visualization of RNA-Seq expression data using Integrated Genome Browser, a highly interactive, flexible genome visualization tool.

Availability – Materials presented here are freely available online at http://?bitbucket.?org/?lorainelab/?tomatopollen and http://?bitly.?org/?rnaseq2014.

Analysis and Visualization of RNA-Seq Expression Data Using RStudio, Bioconductor, and Integrated Genome Browser - 喜欢吃桃子 - wangyufeng的博客
Loraine AE, Blakley IC, Jagadeesan S, Harper J, Miller G, Firon N. (2015) Analysis and Visualization of RNA-Seq Expression Data Using RStudio, Bioconductor, and Integrated Genome Browser. Methods Mol Biol 1284:481-501. [abstract]
 

 

  评论这张
 
阅读(458)| 评论(0)
推荐 转载

历史上的今天

在LOFTER的更多文章

评论

<#--最新日志,群博日志--> <#--推荐日志--> <#--引用记录--> <#--博主推荐--> <#--随机阅读--> <#--首页推荐--> <#--历史上的今天--> <#--被推荐日志--> <#--上一篇,下一篇--> <#-- 热度 --> <#-- 网易新闻广告 --> <#--右边模块结构--> <#--评论模块结构--> <#--引用模块结构--> <#--博主发起的投票-->
 
 
 
 
 
 
 
 
 
 
 
 
 
 

页脚

网易公司版权所有 ©1997-2017