Figure 2.
Protein correlation analysis across AH, VH, and SE. (A) Distribution of correlation coefficients between protein profiles across the three matrices. Spearman correlation was performed for proteins that were well quantified in all three matrices (i.e., proteins quantified above the LOD in more than 30% of the samples of a given matrix). (B) Numbers of significant and relevant protein correlations. Significant correlations were defined as those with a FDR-adjusted P < 0.05, and relevant correlations as those with a correlation coefficient > 0.5. n.s., non-significant; sig., significant; r. & s., relevant and significant. (C) Median protein value correlation analysis across the three matrices. Pairwise scatterplots were generated for each well-quantified protein, comparing the median protein values in the three matrices. Blue lines show the linear relationship (with 95% confidence intervals in gray), and Spearman R2 values are indicated.