A Comprehensive Survey of Genomic Alterations in Gastric Cancer Reveals Recurrent Neoantigens as Potential Therapeutic Targets

Table 2

The list of top 10 neoantigens, their corresponding mutation (AA change), neoantigen frequency in Fujian and TCGA cohorts (Freq1, n = 482), mutation frequency in all GC cohort (Freq2, n = 942), and TCGA pan-cancer cohort (Freq3, n = 11,160), and HLA information.

Gene	AA change	Freq1	Freq2	Freq3	HLA types
PGM5	I98V	10	26	51	HLA-A02:30; HLA-A02:01; HLA-A02:03; HLA-A02:05; HLA-A02:06; HLA-A02:07; HLA-C03:03
TP53	R175H	8	25	162	HLA-C07:02; HLA-C07:01; HLA-A68:01; HLA-A02:03
TRIM49C	S327R	7	10	17	HLA-B35:03; HLA-C06:02; HLA-C12:03; HLA-C07:01; HLA-C07:02; HLA-B27:08; HLA-B07:02; HLA-A02:01; HLA-B27:05; HLA-B57:01; HLA-A32:01; HLA-A11:01; HLA-A31:01
PIK3CA	H1047R	5	24	298	HLA-C07:02; HLA-C07:01; HLA-A30:01; HLA-B58:01; HLA-B57:01; HLA-A33:03; HLA-A68:01
TP53	R273H	5	16	145	HLA-A02:01; HLA-A02:07; HLA-A02:17; HLA-A68:01
KRAS	G13D	5	15	78	HLA-A02:01; HLA-A11:01; HLA-A68:01
ERBB3	V104M	5	11	33	HLA-C06:02; HLA-B08:01; HLA-C07:01; HLA-A30:01; HLA-C12:03; HLA-B35:01; HLA-A30:02; HLA-A68:01; HLA-B07:02; HLA-A03:01; HLA-C07:02; HLA-A02:01
C6	K817T	4	5	9	HLA-C03:04; HLA-C07:01; HLA-C03:03; HLA-C12:02; HLA-A02:01; HLA-C02:10; HLA-A24:02; HLA-B35:01; HLA-B15:03; HLA-A31:01
KRAS	G12D	4	16	430	HLA-A02:01; HLA-C05:01; HLA-A02:06; HLA-A11:01; HLA-A03:01; HLA-B07:02
TP53	R282W	4	14	97	HLA-C03:03; HLA-A11:01; HLA-A03:01; HLA-B07:02; HLA-A68:01
OR4C16	S135R	4	6	8	HLA-B37:01; HLA-A02:06; HLA-A02:01; HLA-B15:01; HLA-C03:03; HLA-B27:05; HLA-A03:01; HLA-C07:02; HLA-A24:02