Relative abundance of a representative set of peptides recovered in eluates from three EL4 cell variants: WT, β2m− mutants, and β2m+ transfectants
| Gene ID . | Gene symbol . | Sequence . | WT . | β2m− . | β2m+ . | WT/β2m− . |
|---|---|---|---|---|---|---|
| 20848 | Stat3 | ATLVFHNL | 4,023,137 | 12,000 | 6,208,130 | 335 |
| 66165 | Bccip | KAPVNTAEL | 1,741,908 | 12,000 | 998,607 | 145 |
| 15016 | H2-Q5 | AMAPRTLLL | 5,436,819 | 12,000 | 12,941,105 | 453 |
| 67755 | Ddx47 | KTFLFSATM | 70,059 | 12,000 | 289,017 | 6 |
| 12649 | Chek1 | TGPSNVDKL | 6,545,497 | 112,308 | 14,733,333 | 58 |
| 267019 | Rps15a | VIVRFLTV | 514,406 | 12,000 | 12,000 | 43 |
| 71745 | Cul2 | VINSFVHV | 67,372 | 12,000 | 244,370 | 6 |
| 233489 | Picalm | NGVINAAFM | 265,420 | 12,000 | 438,191 | 22 |
| 26413 | Mapk1 | VGPRYTNL | 39,166,667 | 149,969 | 45,832,060 | 261 |
| 108655 | Foxp1 | QQLQQQHLL | 705,266 | 12,000 | 1,054,408 | 59 |
| 170755 | Sgk3 | YSIVNASVL | 255,048 | 38,491 | 151,335 | 7 |
| 326622 | Upf2 | SAVIFRTL | 244,247 | 12,000 | 1,102,686 | 20 |
| 12877 | Cpeb1 | SMLQNPLGNVL | 185,198 | 12,000 | 528,268 | 15 |
| 94176 | Dock2 | SMVQNRVFL | 895,081 | 12,000 | 671,603 | 75 |
| 16913 | Psmb8 | GGVVNMYHM | 3,332,728 | 12,000 | 2,116,510 | 277 |
| Gene ID . | Gene symbol . | Sequence . | WT . | β2m− . | β2m+ . | WT/β2m− . |
|---|---|---|---|---|---|---|
| 20848 | Stat3 | ATLVFHNL | 4,023,137 | 12,000 | 6,208,130 | 335 |
| 66165 | Bccip | KAPVNTAEL | 1,741,908 | 12,000 | 998,607 | 145 |
| 15016 | H2-Q5 | AMAPRTLLL | 5,436,819 | 12,000 | 12,941,105 | 453 |
| 67755 | Ddx47 | KTFLFSATM | 70,059 | 12,000 | 289,017 | 6 |
| 12649 | Chek1 | TGPSNVDKL | 6,545,497 | 112,308 | 14,733,333 | 58 |
| 267019 | Rps15a | VIVRFLTV | 514,406 | 12,000 | 12,000 | 43 |
| 71745 | Cul2 | VINSFVHV | 67,372 | 12,000 | 244,370 | 6 |
| 233489 | Picalm | NGVINAAFM | 265,420 | 12,000 | 438,191 | 22 |
| 26413 | Mapk1 | VGPRYTNL | 39,166,667 | 149,969 | 45,832,060 | 261 |
| 108655 | Foxp1 | QQLQQQHLL | 705,266 | 12,000 | 1,054,408 | 59 |
| 170755 | Sgk3 | YSIVNASVL | 255,048 | 38,491 | 151,335 | 7 |
| 326622 | Upf2 | SAVIFRTL | 244,247 | 12,000 | 1,102,686 | 20 |
| 12877 | Cpeb1 | SMLQNPLGNVL | 185,198 | 12,000 | 528,268 | 15 |
| 94176 | Dock2 | SMVQNRVFL | 895,081 | 12,000 | 671,603 | 75 |
| 16913 | Psmb8 | GGVVNMYHM | 3,332,728 | 12,000 | 2,116,510 | 277 |
Gene ID and Gene Symbol description refer to National Center for Biotechnology Information gene entries. Intensities for each EL4 variant cell line correspond to the average MS signal calculated from triplicate experiments. An intensity threshold value of 12,000 was fixed when no signal was detected. To be considered as MHC I associated, a peptide had to be at least five times more abundant on WT relative to β2m-deficient cells.