Fig. 4
Overlap of TgCRND8 progression signature and plaque-niche signature. a Heatmap showing log10 ratio values from each LCM sample (y-axis) for each gene (x-axis) detected in both the LCM and whole cortex studies and with t test p < 0.001 between TgCRND8 and WT cortex at one or more ages. Samples are ordered manually by genotype as indicated. Genes are ordered by agglomerative clustering. b Heatmap showing log10 ratio values from each whole cortex sample (y-axis) for each gene (x-axis) detected in both the whole cortex and LCM studies and with t test p < 0.001 between plaque and normal tissue in TgCRND8 cortex. Samples are ordered manually by genotype as indicated. Genes are ordered by agglomerative clustering. c Venn diagram depicting number of genes in common between signatures in a and b, and the associated hypergeometric p value given 12,130 genes detected in both experiments