Figure 4.

Altered Cerebrospinal Fluid Proteome in R6/2 Mice

(A) Hierarchical clustering of cerebrospinal fluid protein expression reveals good separation of R6/2 and WT mice; row bars indicate filters for known GO annotations related to secretion (see Supplemental Experimental Procedures for details).

(B) PCA projections of all cerebrospinal fluid samples show good separation between WT and R6/2 mice.

(C) Corresponding PCA loadings of (B) reveal strong inflammatory response in R6/2 animals. The color bar displays the 1D annotation score with the two most enriched annotations for R6/2 mice; the annotation score indicates the center of the protein distribution of each significant annotation category relative to the overall distribution of values. p value, BH-FDR corrected.

(D) Correlation of protein expression changes between different disease stages is high within the soluble proteome (purple inlay) but low for the comparison of the soluble proteome with the cerebrospinal fluid (green inlay) of R6/2 mice.

See also Table S2.