How Wald test calculates p-values in DESeq2?

Question

[Amr]

How Wald test calculates p-values in DESeq2?

After getting (LFC) Log2foldChange how p-values are calculated for each gene in samples by Wald test? by results function we get p-values how they are calculated ?

Thanks

[Devon Ryan]

Have you checked wikipedia? https://en.wikipedia.org/wiki/Wald_test

[Basti]

Everything is described in the original article : https://genomebiology.biomedcentral.com/articles/10.1186/s13059-014-0550-8

Answer 1

[Amr]

The answer will be the z-test for two samples:

z = ( ¯x1 − ¯x2) -D / √σ1^2/n1 + σ2^2/n2)

Where ¯x1 is the mean from the collected cancer samples and ¯x2 is the mean of the collected normal samples.