Summary of quantified acetyl(K) sites over MS shotgun experiments of our study (15 experimental conditions, three replicates, analyzed in three TMTpro 16plex setups in total).

The table includes results from the differential expression (DE) testing analysis of protein-normalized acetyl(K)sites (columns C-AL), protein-normalized TMTpro reporter ion intensities of quantified acetyl(K) sites in different conditions (columns AM-BP, and hidden columns BQ-CH), as well as results from DE-testing of proteinGroups (hidden columns CI-DI), and selected columns from the MQ output tables acetyl(K)sites.txt (hidden columns DJ-EB). To generate the table the output from R-script "acetylKSites_analysis_prot_norm" (S1 Material) has been processed using MS-Excel. The table covers information on MS-275 treated wildtype cells, HDAC1-3 catalytic inactive mutants expressed in wildtype and corresponding KOs, and HDAC3KO cells. Results obtained from additional experimental conditions covering HDAC1KO and HDAC2KO cells as well as different HDAC8-related strains are hidden columns BQ-CH).
(XLSB)