Table 1.
How proteins were represented in the immunopeptidome of HCT116 cells was altered by GEM, which induced new peptide antigens from proteins which were displayed on HLA-A,B,C. In addition to proteins having altered peptide representation after GEM treatment, new proteins were also represented in the immunopeptidome of HCT116 cells after GEM treatment. Microarray data is also shown indicating the relative amount of mRNA present for each gene. A sample of proteins with consistently expressed GEM-novel peptides in at least two peptide elution experiments are shown.
| Protein | Peptide(s) from Control | Peptide(s) from Treated | Microarray score Control | Microarray score Treated |
|---|---|---|---|---|
| Oncoprotein Mdm2 | SEQETLVRP | SEQETLVRP | 144.1 | 207.5 |
| DEVYQVTVY | ||||
| YTMKEVLFY | ||||
| DEKQQHIVY | ||||
| Replication protein A 70 kDa DNA-binding subunit | AEAILGQNAA | AEAILGQNAA | 2977.9 | 3072.2 |
| DTEFPNFKY | DTEFPNFKY | |||
| TEFPNFKY | ||||
| Pyruvate dehydrogenase [acetyl-transferring]]-phosphatase 1 | VGDPNSFLNY | VGDPNSFLNY | 1672.9 | 1389.5 |
| SLLPHETLL | ||||
| DNA Topoisomerase 1 | SQIEADFRL | SQIEADFRL | 390.7 | 365.5 |
| YLDPRITVA | ||||
| Cullin-9 | LLLDLERVL | 189.4 | 211.8 | |
| Kanadaptin | EENPIVLEF | 255.8 | 226.8 | |
| Serine/threonine-protein kinase PLK2 | NEDRISTTF | 235.9 | 246.3 | |
| Exosome component 10 | DEYDFYRSF | 1608.8 | 1580.5 | |
| Spermatogenesis-associated serine-rich protein 2 | SSEKGGMNGY | 864.9 | 715.0 | |
| Dynamin-2 | TLIDLPGITKV | 292.8 | 286.8 | |
| ETERIVTTY | ||||
| Antigen peptide transporter 1 (TAP 1) | LLYESPERY | 726.0 | 1235.8 | |
| Sestrin-1 | SLAELVHAV | 212.0 | 639.4 | |
| QMDGPLPLHY |