Figure 1.

The glomerular proteome of SAGN and IgAN. (A) Mean protein expression using dispersion plots—proteins that are differentially expressed are in blue while proteins that are not are in yellow. Fold-change (in log2 scale) is plotted against the mean of normalized protein expression. Each dot represents an individual protein. A fold-change cut-off of ≥ 2 or ≤ -2 in combination with a p value cutoff of ≤ 0.01 was used for detecting differential expression. Only a few proteins are differentially expressed, indicating large overlap in the glomerular proteome of SAGN and primary IgAN. (B) Heat map with unsupervised hierarchical cluster analysis of the top similarly expressed proteins in diseased kidneys compared to normal control kidneys with at least 1.5 fold difference with p ≤ 0.05. Each column represents an individual biopsy sample, and each row represents an individual protein. Blue represents higher expression and yellow lower expression. The degrees of similarity in expression levels are presented in the dendrogram. R version 3.6.0. (C) Differentially-expressed glomerular signaling pathways between SAGN (heat map column 1), primary IgAN-Oxford E1 (heat map column 2), and primary IgAN-Oxford Class E0 (heat map column 3) using Ingenuity pathway analysis (IPA) and z scores (Qiagen Bioinformatics). Orange indicates pathways predicted to be activated, while blue indicates pathways predicted to be inhibited.