Fig. 6: Comparison of CSF and Brain Proteomic Changes in DS and LOAD.

CSF proteomic data were compared to localized brain proteomic data from Aβ plaque and non-plaque tissue in DS and LOAD²⁸. A CSF proteomic changes in all participants with DS (allDS) compared to control versus DS non-plaque tissue (left) and DS plaques (right) compared to control. B CSF proteomic changes in participants with dementia due to DSAD compared to LOAD versus DS non-plaque tissue (left) and DS plaques (right) compared to LOAD. Proteins that were significantly different in either CSF or brain at FDR <0.05 in each contrast are colored by the CSF network module in which they reside. (C) CSF network module eigenproteins were tested for differences in DS and LOAD brain tissue in both plaque and non-plaque regions (control n = 72, preclinical AD n = 8, AD n = 56, other DS n = 14, Asym DS n = 96, prodromal DS n = 47, dementia DS n = 72; n = 20 for each brain group). Differences in module eigenprotein by case status were assessed by Kruskal-Wallis one-way ANOVA. Boxplots represent the median, 25th, and 75th percentile extremes; thus, hinges of a box represent the interquartile range of the two middle quartiles of data within a group. The farthest data points up to 1.5 times the interquartile range away from box hinges define the extent of whiskers (error bars). Plots for other CSF network modules are provided in the Supplementary Information.