Differential expression to compare genes between brain regions (Allen Mouse Brain Atlas)

Question

[dekel]

Hello! I wish to compare the regional expression of genes in order to see if my mouse brain slices' differential expression is heavily affected by the brain region.

I'm wondering if I can directly compare genes with the log2 expression value of the in-situ hybridization (ISH) experiments.

Just to rephrase: Are these values that are generated from many different experiments of ISH comparable across genes?

Thanks!!