affymetrix microarray gene expression analysis
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8.3 years ago

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 • 2.2k views
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8.3 years ago

limma and affy would seem like a good match.

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8.3 years ago

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.

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7.4 years ago
fatima • 0

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

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