Hi!

There are articles obtaining DEGs after correcting for tumor purity. Suppose we are comparing 3 tumors with 3 normal tissues, and that each tumor is, for the sake of simplicity, 80% pure, with the remaining 20% having identical gene expression to normal tissues. How to construct design matrix for such a situation? Is the following matrix a valid approach and the correct matrix?

Source         N0         T0
N              1           0
N              1           0
N              1           0
T              0.2         0.8
T              0.2         0.8
T              0.2         0.8