Question: affymetrix microarray gene expression analysis
0
gravatar for payaljain89
5.7 years ago by
India
payaljain890 wrote:

I have microarray tumour data from TCGA db, now i have to do its differential gene expression analysis.Please suggest me freely available pipeline tools and required data to analyse it in R?

R genome • 1.8k views
ADD COMMENTlink modified 4.5 years ago by Biostar ♦♦ 20 • written 5.7 years ago by payaljain890
3
gravatar for Devon Ryan
5.7 years ago by
Devon Ryan97k
Freiburg, Germany
Devon Ryan97k wrote:

limma and affy would seem like a good match.

ADD COMMENTlink written 5.7 years ago by Devon Ryan97k
1
gravatar for akhilesh.mishra88
5.7 years ago by
akhilesh.mishra8810 wrote:

hi, if you are using Affymetrix platform only then why not you use expression console and transcriptome analysis console software, it will make your life easier...with good reliable result.

ADD COMMENTlink written 5.7 years ago by akhilesh.mishra8810
0
gravatar for fatima
4.8 years ago by
fatima0
United States
fatima0 wrote:

Hi

affy and lima compatible with CEL file or any other format that we dl from TCGA relate to gene level 1 expression data of CODA and be text format

tnx

ADD COMMENTlink modified 9 months ago by RamRS30k • written 4.8 years ago by fatima0
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