Table 2. Total number of DE genes (FDR < 0.05) from different analyses of the Smchd1 data set and P-values from ROAST gene set testing for gene sets that are known to be regulated by Smchd1.

Gene set	Voom	Voom + Sample	Voom + Block	Sample Removal
Protocadherins	0.0581	0.00614	0.0235	0.0707
Imprinted genes	0.0594	0.0198	0.0607	0.337
Total DE genes	12	1478	488	492

The lowest P-value is highlighted in bold.