99 3 Responses of alveolar-like macrophages to lysine deacetylase inhibition Supplementary Table 3: Protein expression of metabolic enzymes in alveolar-like macrophages after KDAC inhibitor treatment in combination with LPS or not. Cells were incubated with KDAC inhibitors (MS275/RGFP966) with and without LPS (LPS, control) for 16 h. After 16 h cells were stimulated with LPS (10 ng/mL). Protein expression levels were measured with a targeted approach, using concatenated peptides as internal standards for protein quantification. Data reported as the percentage of control. Proteins CTRL (%CTRL) LPS (%CTRL) MS275+ LPS (%CTRL) RGFP966+ LPS (%CTRL) p-value CTRL vs LPS Corrected p-value MS275+ LPS vs LPS Corrected p-value RGFP966+ LPS vs LPS Aldolase 95.19 94.63 101.90 112.43 >0,999 >0,999 0,742 Phosphoglycerate Kinase 91.82 97.54 101.17 131.23 >0,999 0,527 0,527 Phosphoglycerate Mutase 121.66 171.53 136.66 104.34 0,844 0,742 >0,999 Enolase 96.65 95.48 129.77 108.68 0,844 >0,999 0,742 Pyruvate Kinase 129.11 113.63 115.39 114.46 0,844 >0,999 >0,999 Lactate dehydrogenase 151.49 202.41 123.19 102.28 0,688 0,147 0,088 Pyruvate dehydrogenase E1 subunit alpha 99.05 87.96 96.93 123.47 0,438 0,773 0,773 Dihydrolipoamide S-Acetyltransferase 132.41 153.35 105.81 95.92 0,844 0,773 0,167 Dihydrolipoamide Dehydrogenase 97.94 95.85 115.87 93.82 0,688 >0,999 0,773 Malate dehydrogenase 95.94 93.70 104.36 112.62 0,688 0,773 >0,999 Aconitase 94.08 91.12 129.31 123.77 0,438 0,773 >0,999 Succinyl-CoA synthetase 104.35 93.08 93.92 96.52 0,688 >0,999 0,773 Alpha-keto glutarate dehydrogenase 95.77 89.38 109.49 117.86 0,844 0,087 0,298 Fumarase 109.35 108.58 99.26 113.23 0,563 >0,999 >0,999 Citrate Synthase 124.72 87.77 98.52 104.11 0,500 >0,999 >0,999 acyl-Coenzyme A dehydrogenase 105.68 88.28 100.49 104.14 0,313 >0,999 >0,999 short-chain acyl-CoA dehydrogenase 96.07 92.95 93.98 107.08 0,844 >0,999 >0,999 Enoyl-CoA Delta Isomerase 1 128.55 98.64 111.86 106.98 0,563 >0,999 >0,999 3-hydroxyacyl-CoA dehydrogenase 99.96 91.03 100.99 103.41 0,438 0,496 >0,999 Acetyl-CoA acyltransferase 2 116.47 86.80 85.65 101.49 0,500 >0,999 >0,999 ATP synthase 95.14 87.23 121.80 104.92 0,563 0,298 >0,999 Cytochrome c oxidase 101.80 93.18 90.47 113.76 0,688 >0,999 >0,999 Cytochrome c 84.59 148.67 101.14 103.92 0,156 0,167 0,167 Electron-transferflavoprotein 124.28 133.36 104.00 104.15 0,844 0,773 0,773 Glucose-6-phosphate dehydrogenase 99.21 83.65 109.86 101.85 0,438 0,087 0,298 Glutathione reductase 90.36 92.56 95.40 107.42 0,563 0,496 0,298 Pyruvate carboxylase 109.64 112.12 126.14 101.54 >0,999 >0,999 0,773 Phosphoenolpyruvate Carboxykinase 2 101.10 109.87 154.27 130.70 0,844 0,773 0,773 Phosphogluconate dehydrogenase 123.30 105.77 109.17 96.53 0,563 >0,999 0,773
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