Supplementary Figure 3: Characterization of the MOF dependent proteome and acetylome deregulation on MEFs and ESCs.

a) Adjusted liquid chromatography profiles for particular IP fractions that exhibit different hydrophobic properties (Methods). b) Graphic representation of histone multiplicity (Supplementary Tables 3, 4 and 6). c) Correlation between different multiplicities of acetylated sites identified in MEFs and ESCs Mof KO. Log2 fold changes of a two-sided t-test performed on n=6 SILAC ratios. Histone acetyl (Lys) sites are highlighted in red and H4K16ac in green. The red line and gray field correspond to a linear smooth fit regression with a 0.95 confidence interval respectively. d) Immunoblotting on whole cell extracts of control and Mof KO ESCs. Uncropped blots in Supplementary Fig. 9. e) Overlap of the MEFs and ESCs Mof KO proteome and acetylome datasets. f) Heatmap illustration of the quantitative proteome changes of Mof KO MEFs and ESCs. Dendrogram illustrates Euclidean distance clustering with 4 identified clusters. Color range indicates the log2 fold changes. g) Enriched gene sets of Supplementary Fig. 3f. (Supplementary Table 5). h) Same as Supplementary Fig. 3f for the commonly detected acetyl (Lys) sites. i) Enriched gene sets of Supplementary Fig. 3h. (Supplementary Table 5). j) Enriched gene sets of the MEFs and ESCs-only acetylome. (Supplementary Table 5). k) Heatmap illustration of all quantified histone acetyl (Lys) sites, in MEFs and ESCs Mof KO. Color range indicates the log2 fold changes. Different multiplicity values were averaged (Supplementary Fig. 3b, c and Supplementary Table 6). Not identified sites are marked as a crossed box. l) Enriched gene sets of the statistically significantly hypoacetylated targets in MEFs and ESCs Mof KO. Color scale depicts the p-value of the statistically enriched terms (Supplementary Table 5). m) Circos plot representation of the GO analysis overlap between significantly hypoacetylated Mof KO targets in MEFs and ESCs. Yellow lines represent similar GO terms (Supplementary Table 5). For panels g, I, j, l, m the n=number of dataset genes within each GO term is defined in Supplementary Table 5.