Fig. 6

Transcriptome and proteome cell type-specific pathways in Mecp2 ^Jae/y cortex. Selected biological pathways that are both shared and unique to the transcriptome (R) and proteome (P) data sets are grouped by broad categories associated with CNS and general cell type specific function: (a) neuronal functions, (b) glial functions, (c) immunological/inflammation functions, and (d) blood/blood vessel/vasculature. Respective pathways are plotted by −Log₁₀ p-value, where a value of 1.3 or greater represents a p-value of at least p < 0.05; non-significant (NS) pathways are denoted in white. The direction of gene (gray bars) and/or protein (black bars) expression changes associated with each respective pathway are represented as a percent expression to the right of the heat map, where a value greater than 0 indicates increased expression and a value less than 0 indicates decreased expression. The percent expression was calculated as described in Fig. 5. Note in part B, the abbreviation “EAE” stands for “experimental autoimmune encephalomyelitis”; in part C, the abbreviation “APCs” in the pathways “Immune response of APCs” and “Cell movement of APCs” stands for “antigen presenting cells.” For a comprehensive list of all pathways and associated significant genes/proteins identified in both the transcriptome and proteome data sets, see Additional file 10