Hello potential MAST experts,

I have a dataset I am trying to analyze which includes multiple variables I need to control for, and contrast. These variables are condition (test, control), tissue (A, B), and timepoint (1,2,3, with 3 being the oldest).

I want to ask a few simple questions of the dataset:

Quesetion 1: What genes are being upregulated over time due to the test condition in both tissues?

Question 2: What genes are being upregulated in tissue A moreso over time due to the test condition compared to tissue B?

Question 3: What genes are being upregulated in tissue B moreso over time due to the test condition compared to tissue A?

Some guidance on how to answer these would be highly appreciated. I have already tried an approach with a formula that looks like ~ 0 + cngeneson + condition_tissue_timepoint (which is a concatenation of the 3 condition metadatas) and then performing contrasts thereafter, but I am not sure this is the ideal approach.

Any guidance would be highly appreciated!

-Dillon