Figure 4

Proteomics analysis. Protein expression profiles were evaluated by shotgun proteomics for all LND (n = 6) and control (n = 6) lines. There was a good quantitative correlation between the gene and protein expression results for both the LND and control lines (A). Only 7 proteins reached statistical thresholds for differential expression at FDR < 0.10 (B). Individual variation for among the lines for the 7 proteins meeting the FDR < 0.10 criterion is shown as a heatmap (C). Red depicts a higher gene expression and green depicts lower gene expression. Only 2 proteins remained significantly different between LND and control at FDR < 0.01, and a volcano plot revealed marked reductions in the levels of both HGprt and NSE4A (D). Red depicts genes with p < 0.001 and fold change > 2. Green and gray depict FDR > 0.05. The marked reductions in all LND lines (blue) compared to all control lines (red) were confirmed by evaluation of the raw and imputed values for HGprt (E).