FIGURE 2.

Evaluation of proteomics data to reveal significant pathways and proteins. (a) Canonical pathway analysis reveals the top five pathways altered by aggregation. (b) Ingenuity pathway analysis (IPA) of the most significant pathways revealed protein patterns, which were responsible for the observed effect. Ratio: the number of proteins in our data set versus the number of proteins in this pathway. The three illustrations in (b) have the same proteins and flow chart, but the color of the box indicates different expression levels as shown in the color scale. For example, red color shows more increased measurement, while pink color shows less increased measurement. The dark green color shows more decreased measurement, while the light green color shows less decreased measurement