Table 2.

Tumor-specific polymorphisms and epitopes for human melanomas

SampleSomatic mutationsaNetMHC predicted epitopesb
Synonymous/nonsynonymous in UCSC annotationSubset of nonsynonymous mutations within CCDS coding regionsTotalA0101A0201A0301
SynonymousNonsynonymousTotalNonsynonymousMissenseNon-sense
01T1603042922912721247326262185
05T5611510610610061751211647
09T3983818076413157749
12T42774170670565649119350657486
18T911901791791681128615144127
22T691261161151087181209467
24T1633973813793582162526263336
35T133432323116814423
43T6894919186517549081
51T511361261261179229714874
60T6712912112011282091491104
91T992152092091961332918176135
93T541301251241168184610573
96T6811811211210391921010181
  • a Calculated from mutation data published by Wei et al. (2011), and using the epitope prediction step of the Epi-Seq pipeline to call the epitopes based on the mutation data.

  • b Most common HLA alleles were chosen according to the published frequencies of such alleles (Cao et al., 2001).