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Differential Expression for different GEO datasets

Hello,

I'm planning on analyzing different datasets from GEO.

Have to be honest, I've done wet-lab for most of my career, and I'm now slowly moving into "bioinformatics" (quotations because I feel like I'm not doing proper bio info work). I've been coding for almost a year and quite used to R and python now.

My first question is, What is the impact of comparing the expression on different platforms? as not all experiments have been conducted using the same platform

    • I'm not really comparing between different datasets, but want to compare the expression of some genes of interest between different experiments.

3.- Anyone could recommend a good book for statistics in bioinformatics?

I still don't fully understand the whole workflow

Many thanks!

  • A fellow trying to learn bioinformatics whilst doing a PhD
rna-seq differential_expxression
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updated by mmfansler mmfansler • written by PM • PM

Can you give a precise example of what you want to compare? Like one gene between groups and each dataset has these groups, or really compare between datasets?

For a book recommendation, you probably want https://www.huber.embl.de/msmb/

• 0 views • link
written by ATpoint ATpoint

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