Fig. S1.
Analysis of diurnal protein oscillations in the mitochondrial fraction. (A) Scatter plot showing protein categories (UniProt keywords) that were statistically enriched (Fisher exact test P < 0.05) in the quantified mitochondrial fraction proteome compared with an in silico mouse proteome. Highlighted categories are the most statistically enriched. Categories statistically overrepresented (enrichment factor >1) are indicated in red, and categories statistically underrepresented (enrichment factor <1) are indicated in blue. (B) The percentage of proteins that exhibit a daily pattern of accumulation in the mitochondrial fraction prepared from mouse liver. Of 1,537 identified and quantified proteins, 452 exhibited statistically significant (q value < 0.15) daily oscillations (29%; 12 time points; n = 4 for each). (C) Fold change distribution of rhythmic proteins calculated using the median of the log2 label-free (LFQ) intensities for each time point. The median fold change of the population was 1.41-fold. (D) Radar plot shows the distribution of phases for rhythmic proteins. The y axis on the upper left side indicates the scale of the histogram bins. (E) Hierarchical clustering of rhythmic proteins based on the phase of the cycle. Each row corresponds to a protein group, and each column corresponds to the analyzed sample. The color scale of the values (Z-scored normalized log2 label-free intensities) is shown in the bottom bar [high (light blue) and low (yellow)].