Differential expression results are consistent with previous studies. (a) Genes showing enrichment for CA1 or CA3 in previous studies of AD show similar enrichment in this study (Lein et al. , Torres-Muñoz et al. (TM) ). The y-axis shows the percentage of genes with consistent results between studies. The x-axis shows the subset of genes used: EXP, 'highly expressed' (average expression >1,000); SIG, 'significant' differential expression (P < 0.05); VERY SIG, 'highly significant' differential expression (P < 0.005). (b) Example mouse in situ hybridizations for common CA1- and CA3-enriched genes were reproduced from the Allen Mouse Brain Atlas (Allen Institute for Brain Science, ©2009 ). Bars represent the relative expression levels in CA1 and CA3 in our data. Error bars show standard error. (c) Common region-enriched genes in this study and in the Allen Human Brain Atlas . Points correspond to the ratio of the average CA3 versus CA1 expression in both studies on a log2 scale. See also Figure S3 in Additional file 6. (d) Genes show similar correlations to disease (as measured by Braak stage) between this study and a previous study of similar design . The y-axis shows the correlation of this measure across genes between studies. The x-axis labeled as in (a) (ALL, all genes). Data corresponding to all genes is presented in the inset and Figure S4 in Additional file 6. (e) Genes showing significant disease alteration in CA1 in three previous studies tend also to change in the same direction with AD in this study (Blalock et al. , Colangelo et al. (Colang.) , Liang et al. ). Bars represent the level of consistency between our results and the labeled list of differentially expressed genes (y-axis). Mean gene rank (x-axis) scales from 0.5 (completely opposite results) to 0.5 (perfectly consistent) with chance = 0 (see Materials and methods). P-values: *P < 0.05, ** P < 0.006, *** P < 0.00001, **** P < 10-45. (f) Genes showing significant region-enrichment in control in three previous studies tend to show similar regional enrichment in this study. Labeling as in (e) (Newrzella et al. (Newr.) ).