Supplementary Figure 9: Subtraction of shared responses to reveal deeper biochemical insight.
From: Mitochondrial protein functions elucidated by multi-omic mass spectrometry profiling
(a) RDR-abundance adjustment of a representative molecule (Mls1p) by subtraction of the average fold change in abundance (mean log2[Δgene/WT], n = 3) across respiration deficient (RD) strains. This adjustment was only performed within RD strains. (b) Plots comparing relative protein abundances between pairs of Δgene strains. Linear regression analysis of pairs of perturbation profiles before (left) and after (right) RD-abundance adjustment. Green points indicate molecules significantly perturbed in both mutants (|log2(FC)| > 0.7; P < 0.05; two-sided Student’s t-test) prior to RDR-adjustment. (c) Expanded view of highly correlated strains in the respiration proteomes correlation map (see Fig. 3b). (d) Procedure for normalization of the RDR. (e) Re-clustered respiration proteome strain-strain correlation map following RDR-adjustment (also shown in Fig. 3g).
