Supporting Information Figure 1. Venn diagrams displaying the technical triplicate protein group identification for (a) SW480 control (b) SW480 5-FU (c) SW260 control (d) SW620 5-FU. Total number of protein groups identified for each technical replicate (TR) is displayed.

Supporting Information Figure 2. Representative LC-MS/MS peptide ion fragmentation spectra of select peptides from several proteins (a) Catenin beta-1 (P35222) (b) Pyruvate kinase (P14618) (c) Peroxiredoxin-6 (P30041) (d) Transforming protein RhoA (P61586).

Supporting Information Figure 3. The coefficient of variation (CV%) for the proteins identified in each sample are plotted as a function of spectral counts (SpC); (a) SW480 control (b) SW480 5-FU (c) SW620 control (d) SW620 5-FU.

TR 1

TR 2 TR 3279

275

271

228

390

390 391

BTR 1

TR 2 TR 3246

258

242

179

365

370 371

A

TR 1

TR 2 TR 3389

381

396

326

521

508 522

C TR 1

TR 2 TR 3347

351

352

289

494

485 487

D

Supporting Information Figure 1

Supporting Information Figure 2

  GDLGIEIPAEK found in KPYM b

HFCPNVPIILVGNK found in RhoA dLPFPIIDDR found in PRDX6 c

LLNDEDQVVVNK found in CTNNB1a

a

Supporting Information Figure 3