Table 1: Proteome and phosphoproteome coverage.
Summary of the identified, quantified and significantly changing diurnal proteins, phosphopeptides and phosphoproteins. Quantification confidence thresholds are shown for the proteome (proteins identified by ≥ 2 proteotypic peptides) and the phosphoproteome (site probability score ≥ 0.8) quantified in ≥ 3 biological replicates for each time point of the diurnal cycle and for each of the three time-points at the L-D and D-L transitions. The significance thresholds are shown for the proteome (FC ≥ 1.5; ANOVA P value ≤ 0.05) and the phosphoproteome (ANOVA P value ≤ 0.05). Application of proteome and phosphoproteome significance thresholds are denoted by a single (*) and double (**) asterisks, respectively.
Table 2: GSEA of significantly changing phosphoproteins at the D-L and L-D transition. GSEA was performed using SetRank (P value ≤ 0.01; FDR ≤ 0.05, minProt = 2).