Tukey's HSD test after one way ANOVA?

I would like to know if there are any tutorials or chapters in books on post hoc tests (to be specific Tukey's HSD tests) for analysing gene expression data.

By performing a 1-way ANOVA we are able to determine whether a gene is differentially expressed in any of the groups (say several tissues from the brain) tested. However it does not indicate which specific group where it is significantly expressed.

I came across this article on Using ANOVA for gene selection from microarray studies of the nervous system along with the R script (http://www.chibi.ubc.ca/wp-content/uploads/2013/02/methods-script.txt).

But in the above article they have used the template matching method to identify genes expressed in specific regions in the brain whereas I would like to try Tukey's HSD test.

Does anyone know any good tutorial or webpage for this? Most of the pages online are not oriented to gene-wise ANOVA but more generalized.