Comparison of genes with adjusted p < 0.05 from analyses of the CESC study involving the raw counts (RC) or the library size adjusted counts using the UQ, TMM or RLE methods.

Design matrix contains: (A) workflow 2: known technical artifact (batch ID) along with the primary factor of interest (i.e., keratin-low and keratin-high groups), and (B) workflow 1: only the primary factor of interest.