Question

Differential Analysis for gene expression from TCGA (Level 3)

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hudacdif • 0

@hudacdif-7474

Last seen 9.8 years ago

United Kingdom

Hi everyone, I am having a bit difficulties to start doing differential analysis. Can anybody help me on this? Below is my sample dataset which has been taken from TCGA level 3 gene expression dataset of GBM (Cancer). Rownames are the genes names (ID).

limma microarray tcga • 4.9k views

ADD COMMENT • link updated 9.8 years ago by Steve Lianoglou ★ 13k • written 9.8 years ago by hudacdif • 0

score 0 · Answer 1 · 2015-04-23

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Steve Lianoglou ★ 13k

@steve-lianoglou-2771

Last seen 23 months ago

United States

Please reference this thread for a few ways to work over TCGA RNA-seq data:

Can I feed TCGA normalized count data to EdgeR for differential gene expression analysis

ADD COMMENT • link 9.8 years ago Steve Lianoglou ★ 13k

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The glioblastoma multiforme RNA expression measurement was almost exclusively done with microarrays. The example shown appears to be zero-centred microarray data.

ADD REPLY • link 9.8 years ago Dario Strbenac ★ 1.5k