Table 1 Characteristics of the validated t-neopeptides
t-neopeptide | q-Value | XCorr | HLA restriction SYFPEITHI | SYFPEITHI score [% of max. score] | HLA restriction NetMHC | NetMHCpan [rank] | Predicted source ORF | ORF length | Source transcript class | LTR12 derived |
|---|---|---|---|---|---|---|---|---|---|---|
VMFQDFVSW | 0.000 | 3.102 | A*32:01 | 39.39 | A*32:01 | 0.014 | ORF_MSTRG.23152.1.p3 | 29 | Non-chimeric | LTR12C |
LLLSYRYIY | 0.000 | 3.369 | A*32:01 | 72.73 | A*32:01 | 0.841 | ORF_MSTRG.28868.1.p28 | 12 | Non-chimeric | LTR12 |
VLSVSRFSF | 0.000 | 2.822 | A*32:01 | 78.79 | A*32:01 | 0.177 | ORF_MSTRG.31576.1.p89 | 10 | Chimeric | NO |
VTKSTSLPW | 0 | 3.22 | A*32:01 | 63.64 | A*32:01 | 0.095 | ORF_MSTRG.29327.1.p7 | 78 | Chimeric | NO |
ORF_ENST00000354536.9_3.p8 | 65 | Known | NO | |||||||
SYLKYVFQL | 0.000 | 2.443 | A*24:02 | 80.65 | A*24:02 | 0.012 | ORF_MSTRG.29191.1.p4 | 28 | Non-chimeric | LTR12C |
ORF_MSTRG.29191.2.p6 | 28 | Non-chimeric | LTR12C | |||||||
IIAQLLNSTW | 0.000 | 3.589 | A*32:01 | 63.89 | A*32:01 | 0.637 | ORF_MSTRG.28772.1.p3 | 24 | Non-chimeric | LTR12F |
KEQTPDTPSL | 0 | 2.9 | B*40:01 | 68.75 | B*40:01 | 0.081 | ORF_MSTRG.7601.1.p1 | 44 | Non-chimeric | LTR12 |
ORF_MSTRG.16894.1.p1 | 173 | Chimeric | LTR12 | |||||||
ORF_MSTRG.16894.3.p1 | 182 | Non-chimeric | LTR12 | |||||||
ORF_MSTRG.19191.1.p2 | 76 | Non-chimeric | LTR12 | |||||||
ORF_MSTRG.25496.1.p1 | 103 | Non-chimeric | LTR12C | |||||||
ORF_MSTRG.25979.1.p1 | 83 | Non-chimeric | LTR12C | |||||||
YTKLIGGYY | 0 | 3.81 | C*02:02 | 71.43 | C*02:02 | 0.141 | ORF_MSTRG.16351.4.p1 | 87 | Non-chimeric | LTR12D |
ORF_MSTRG.16351.5.p1 | 87 | Non-chimeric | LTR12D | |||||||
RIFPVGLNSF | 0.000 | 3.511 | A*32:01 | 80.56 | A*32:01 | 0.008 | ORF_MSTRG.29412.1.p2 | 56 | Non-chimeric | LTR12C |
RTAPFTSSY | 0.002 | 2.774 | A*32:01 | 84.85 | A*32:01 | 0.007 | ORF_ENST00000206423.7_2.p55 | 20 | Known | NO |
LISGEGLLL | 0.007 | 2.2 | C*02:02 | 64.29 | C*03:03 | 1.016 | ORF_ENST00000409039.7_3.p35 | 23 | Known | NO |
ORF_ENST00000492261.5_1.p10 | 23 | Known | NO | |||||||
RVADLVLIF | 0.002 | 1.899 | A*32:01 | 75.76 | A*32:01 | 0.006 | ORF_MSTRG.14951.2.p3 | 59 | Non-chimeric | LTR12C |
SEEPLRPAA | 0.002 | 2.638 | B*40:02 | 42.42 | B*40:02 | 0.386 | ORF_MSTRG.7564.7.p10 | 16 | Non-chimeric | NO |
LYGPQSNSFF | 0.000 | 3.268 | A*24:02 | 70.00 | A*24:02 | 0.065 | ORF_MSTRG.31594.19.p1 | 75 | Chimeric | NO |
KLQSIIYIY | 0.023 | 2.198 | A*32:01 | 78.79 | A*32:01 | 0.037 | ORF_MSTRG.14414.2.p3 | 106 | Non-chimeric | LTR12C |
