## 2 Results
### Proteome Analysis by Isotope Coded Protein Label (ICPL)
\begin{table}
\begin{tabular}{c c c c} \hline
**Accession** & \multicolumn{3}{c}{**Protein Expression ICPL in**} & **Protein Expression ICPL in** \\
**Number** & **Protein Name** & **nCRT I (Dworka** & **nCRT II (Dworka** \\  & & **1 + 2/Dworka 3 + 4)** & **1+2/Dworka 3 + 4)** \\ \hline \multicolumn{3}{c}{Synchronously regulated proteins in nCRT I and II} \\ \hline IPI00006663 & \begin{tabular}{c} ALDH2 Aldehyde dehydrogenase, \\ mitochondrial precursor \\ \end{tabular} & 0.53 & 0.53 \\ \hline IPI00010290 & FABP1 FABP1 protein (Fragment) & 0.54 & 0.33 \\ \hline IPI00013847 & \begin{tabular}{c} UQCRC1 Cytochrome b-cl complex \\ subunit 1, mitochondrial precursor \\ \end{tabular} & 0.63 & 0.52 \\ \hline IPI00014898 & PLEC1 Isoform 1 of Plectin-1 & 0.48 & 0.43 \\ \hline IPI00026185 & \begin{tabular}{c} CAPZB Isoform 1 of F-actin-capping \\ protein subunit beta \\ \end{tabular} & 0.64 & 0.58 \\ \hline IPI00027444 & \begin{tabular}{c} SERPINB1 Leukocyte elastase \\ inhibitor \\ \end{tabular} & 0.30 & 0.49 \\ \hline IPI00216256 & \begin{tabular}{c} WDR1 Isoform 2 of WD \\ repeat-containing protein 1 \\ \end{tabular} & 0.40 & 0.56 \\ \hline IPI00289334 & FLNB Isoform 1 of Filamin-B & 0.36 & 0.39 \\ \hline IPI00298860 & LTF Growth-inhibiting protein 12 & 0.56 & 0.41 \\ \hline IPI00337335 & MYH14 Isform 1 of Myosin-14 & 0.41 & 0.57 \\ \hline IPI00426051 & \begin{tabular}{c} IGHG2, Putative uncharacterized \\ protein DKFZp686C15213 \\ \end{tabular} & 2.36 & 2.35 \\ \hline IPI00479186 & \begin{tabular}{c} PKM2 Isoform M2 of Pyruvate \\ kinase isozymes M1/M2 \\ \end{tabular} & 0.43 & 0.43 \\ \hline IPI00643920 & TKT Transketolase & 0.38 & 0.47 \\ \hline IPI00793199 & ANXA4 Annexin IV & 0.41 & 0.58 \\ \hline \multicolumn{3}{c}{Up regulated proteins in good responders (Dworka 3 + 4) nCRT I} \\ \hline IPI00000105 & MVP Major vault protein & 0.48 & n.r. \\ \hline IPI00000874 & PRDX1 Peroxiredoxin-1 & 0.59 & n.r. \\ \hline IPI00004657 & \begin{tabular}{c} HLA-B major histocompatibility \\ complex, class I, B \\ \end{tabular} & 0.45 & n.r. \\ \hline IPI00007750 & TUB4A Tublin \(\alpha\)-4A chain & 0.37 & n.r. \\ \hline IPI00007752 & TUBB2C Tublin beta-2C chain & 0.40 & n.r. \\ \hline IPI00007797 & \begin{tabular}{c} FABPS;FABPSL7 Fatty acid-binding \\ protein, epidermal \\ \end{tabular} & 0.31 & n.r. \\ \hline IPI00008274 & \begin{tabular}{c} CAP1 Adenylyl \\ cyclase-associated protein \\ \end{tabular} & 0.55 & n.r. \\ \hline IPI00010133 & CORO1A Coronin-1A & 0.57 & n.r. \\ \hline IPI00010154 & \begin{tabular}{c} GDI Rab GDP dissociation \\ inhibitor \(\alpha\) \\ \end{tabular} & 0.53 & n.r. \\ \hline IPI00011654 & TUBB Tublin beta chain & 0.51 & n.r. \\ \hline IPI00011937 & PRDX4 Peroxiredoxin-4 & 0.11 & n.r. \\ \hline IPI00013683 & TUBB3 Tublin beta-3 chain & 0.50 & n.r. \\ \hline IPI00013881 & \begin{tabular}{c} HNRPH1 Heterogeneous nuclear \\ ribonucleoprotein H \\ \end{tabular} & 0.59 & n.r. \\ \hline IPI00013890 & \
\begin{tabular}{c} SFN Isoform 1 of 14-3-3 \\ protein sigma \\ \end{tabular} & 0.44 & n.r. \\ \hline IPI00024095 & ANXA3 Annexin A3 & 0.51 & n.r. \\ \hline IPI00025252 &
\begin{tabular}{c} PDIA3 Protein disulfide-isomerase \\ A3 precursor \\ \end{tabular} & 0.49 & n.r. \\ \hline \end{tabular}
\end{table} 
Table 1: Differentially regulated proteins identified by isotope coded protein label (isotope coded protein label (ICPL)) between poor (Dworka 1 + 2) and good (Dworka 3 + 4) responders to neoadjuvant chemoradiation (nCRT I or II; n.r. : not regulated regarding the selection criteria (regulation value \(1.5\geq 1\geq 0.66\) and CV \(\leq 30\%\)); nCRT I: 50.4 Gy + 5-FU; nCRT II: 50.4 Gy + 5-FU/Oxaliplatin.