**30**wrote:

I would like to know, how to calculate p-values from log2 (expression ratio) value of given set of genes in a replicated microarray experiment.

**46k**• written 7.8 years ago by Sanchita •

**30**

Question: How To Compute P-Values From Gene Expression Data?

2

Sanchita • **30** wrote:

I would like to know, how to calculate p-values from log2 (expression ratio) value of given set of genes in a replicated microarray experiment.

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modified 3.6 years ago
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Michael Dondrup ♦ **46k**
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7.8 years ago by
Sanchita • **30**

17

Michael Dondrup ♦ **46k** wrote:

I'll treat this as a sort of FAQ question, let's see if it pays off:

p-values are the results of applying a statistical test. The essential requirement is that the experiment is replicated (at least 3 repeated measurements is mostly recommended).

For a basic overview: http://en.wikipedia.org/wiki/Gene_expression_profiling#Statistical_analysis

There are many software tools that can do these calculations (even Excel could do a simple t-test), but R and Bioconductor contain the largest collection of microarray test-tools: e.g.:

For differential expression analysis of RNA-sequencing, there are e.g.:

- edgeR
- DESeq
- DEGseq
cuff-links/-diff (stand alone)

here's the complete list.

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