Table 1.

Number and classification of transcripts enriched in Sepw1-pure compared to WT-pure or Nr5a1-pure RNA sample types

Comparison	Sepw1-WT	Sepw1-Nr5a1
Number enriched (padj = 0.1)	1907	634
Layer 2/3	117*	103*
Layer 4	59*	37*
Layer 5	55	6*
Layer 6	45	12
Layer 6b	47	15
Unpatterned	40	11

Genes significantly enriched in various cortical layers (400 top enriched genes per layer from an online database published in Belgard et al., 2011) were compared to the genes most significantly enriched (after DESeq differential expression analysis) in Sepw1-pure samples when compared to WT-pure (Table 1-2), or Nr5a1-pure (Table 1-3) sample types. Experimentally derived numbers of overlapping genes falling outside the upper (layer 2/3 and layer 4) or lower (layer 5) 95% confidence limits of the mean (derived from resampled distributions indicated in Table 1-1) are marked with an asterisk. Raw gene counts for all samples are listed in Table 1-4.