Fig. 2

Multidimensional Scaling (MDS) Plots for inflamed and clinically uninflamed samples. A MDS Plot of the 120 samples from the 60 patients initially analyzed for cell-type heterogeneity using EpiDish, colored by diagnosed inflammation status. B MDS Plot of the 120 samples from the 60 patients initially analyzed for cell-type heterogeneity using EpiDish, colored according to the amount of infiltrated immune cells. C MDS Plot of the EpiDish-filtered 96 samples used for the EWAS, colored by diagnosed inflammation status. D MDS Plot of the EpiDish-filtered 96 samples used for the EWAS, colored according to the amount of infiltrated immune cells. In the initial sample panel, clinically uninflamed biopsies with high estimations of infiltrated immune cells clustered together with tissue diagnosed as inflamed (A, B). When including only samples diagnosed as “uninflamed” and “inflamed” that contained ≤ 35% and ≥ 40% immune cells, respectively, inflammation status (“uninflamed” and “inflamed”) clustered distinctly, with immune cell fractions as estimated by EpiDish reflecting this classification (C, D)