Supplementary Figure 2: Mass spectrometry analysis metrics and quality assessment.
From: Mitochondrial protein functions elucidated by multi-omic mass spectrometry profiling
(a) Proteins, lipids, and metabolites quantified per Δgene strain (mean ± s.d., n = 3). (b) MS experiments conducted per day (top) and phenotypes (molecules) quantified per day (bottom) for proteomics, lipidomics, and metabolomics. (c) Overview of the yeast protein extraction method optimized for this study compared to previous work. (d) Violin plots depicting the range of fold changes in molecule abundance (log2[Δgene/WT]) across all molecule classes and metabolic states. (e) Density plots of the distribution of coefficients of variation (CVs) (%) for each molecule measured in biological triplicate across all mutants and growth conditions. (f) Venn diagrams depicting the average overlap of molecules quantified within individual Δgene strains across fermentation and respiration growth conditions. (g) Average profile overlap between different Δgene strains.
