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Supplemental Figure 1 A) Correlation of cell lines for LysC/trypsin-digested dataset B) Correlation of cell lines for LysC-digested dataset 8 18 28 38 10 25 40 15 35 55 56 0.9518 0.2614 0.3415 -0.4644 -0.4691 -0.3118 -0.3008 -0.5315 -0.5314 0.2103 0.3227 -0.4567 -0.2976 -0.2759 -0.5221 -0.5198 0.8561 -0.4802 -0.4534 -0.3695 -0.3794 -0.3738 -0.4086 -0.5081 -0.3367 -0.3331 -0.4441 -0.4581 0.979 -0.1249 -0.1274 0.0484 0.0601 -0.1443 -0.1419 0.0352 0.0545 0.9791 -0.0434 -0.0405 -0.0644 -0.0452 0.9324 10 25 40 50 56 0.9618 0.2982 0.3474 -0.4708 -0.4762 -0.3124 -0.3115 -0.5318 -0.5343 0.269 0.3409 -0.4781 -0.4735 -0.3041 -0.2936 -0.5249 -0.5211 0.8904 -0.5082 -0.4832 -0.3483 -0.3462 -0.4127 -0.4273 -0.5423 -0.5189 -0.3298 -0.3173 -0.4613 -0.461 0.9748 -0.147 -0.1526 0.0724 0.0756 -0.1679 -0.1644 0.0571 0.0713 0.9769 -0.0458 -0.0557 -0.0655 -0.0608 0.9612 CAPAN 1 CAPAN 1 CAPAN 2 CAPAN 2 HPAC 1 HPAC 1 HPAC 2 HPAC 2 HPNE 1 HPNE 1 % of TMT signal HPNE 2 % of TMT signal HPNE 2 PANC1 1 PANC1 1 PANC1 2 PANC1 2 PaSC 1 PaSC 1 PaSC 2 PaSC 2 % of TMT signal % of TMT signal Supplemental Figure 1: Correlation matrices comparing the proteins quantified in each cell line within each dataset. Correlations were determined for the A) Lys-C/trypsin dataset and the B) the Lys-C dataset. The lower triangle shows the correlation plot for each pair of carbon sources, while the upper triangle shows the corresponding Pearson correlation (r).