Identifying sample considered in each group
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Akhilesh • 0
@4976c939
Last seen 2 days ago
United States

Hi Love,

I am using DESeq2 for identifying DEG through RNASeq data. In this step,

dds <- DESeq(dds)
res <- results(dds, name = "SampleGroup_Tumor_vs_Normal")

For confidence in the study, I just want to know what are the "SampleID" (Name) which are considered as "Tumor" and what are the SampleID which are considered as "Normal"

Please guide in this regards,

Thanks, Akhilesh


My design file is like this,

SampleID    SampleGroup
TK_H0248_1  Tumor
TK_H0248_3  Tumor
TK_H0248_5  Tumor
TK_M1833_4  Tumor
TK_M1833_8  Tumor
N_H0248_6   Normal
N_H0248_9   Normal
N_M1833_7   Normal
DESeq2 • 86 views
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Entering edit mode
@kevin
Last seen 17 minutes ago
Republic of Ireland

Hey Akhilesh, according to the design file, they are:

  • Tumour (Tumor): TK_H0248_1, TK_H0248_3, TK_H0248_5, TK_M1833_4, TK_M1833_8
  • Normal: N_H0248_6, N_H0248_9, N_M1833_7

Or, did you have a different question? - if 'yes', please elaborate further.

Kevin

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