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I have the matrix in the following format :


ID_REF      GSM362180    GSM362181  GSM362188    GSM362189  GSM362192
244901_at   5.094871713 4.626623079 4.554272515 4.748604391 4.759221647
244902_at   5.194528083 4.985930299 4.817426064 5.151654407 4.838741605
244903_at   5.412329253 5.352970877 5.06250609  5.305709079 8.365082403
244904_at   5.529220594 5.28134657  5.467445095 5.62968933  5.458388909
244905_at   5.024052699 4.714631878 4.792865831 4.843975286 4.657188246
244906_at   5.786557533 5.242403911 5.060605782 5.458148567 5.890061836

In the above matrix the first column is the list of genes ( 22810) and the corresponding columns correspond to the different promoters ( totally 4 different types) . How would it be possible to find the differentially expressed genes in such a case ??

I wantto use the t- test to identify the DEG's. I know to find the DEG's using the multtest package in R in case of two conditions ( such as control and treatment). But do not know how to proceed with four different types of promoters and identify the DEG's .

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使用该limma软件包进行各种微阵列差异表达。它有一个很棒的小插图，可在其Bioconductor 登陆页面上找到（连同安装说明）。如果使用limma，请跟进Bioconductor 邮件列表上的问题（但请阅读小插图并在必要时先咨询具有一些统计知识的人。

于 2012-10-16T12:25:11.657 回答