Development of a whole-exome sequencing kit to facilitate porcine biomedical research

Table 8 High impact variants with increased allele frequency in Oncopig HCC tumor compared to cell line

Gene	Variant type	VAF in Oncopig HCC cell line	Highest VAF in a region of the Oncopig HCC tumor
ATAD2	INDEL: frameshift	0.071	0.333
BCL9	SNV: stop gain	0.010	0.047
CCDC47	SNV: stop gain	0.016	0.037
CP	INDEL: frameshift	0.05	0.125
DBF4	INDEL: frameshift	0.007	0.053
DTNA	SNV: splice acceptor	0.010	0.033
ENSSSCG00000033117	SNV: stop gain	0.020	0.034
ENSSSCG00000033287	INDEL: frameshift	0.423	0.556
ENSSSCG00000042907	INDEL: frameshift	0.009	0.066
FGF23	INDEL: frameshift	0.042	0.152
GFM2	SNV: stop gain	0.013	0.042
IFIT1	INDEL: frameshift	0.019	0.083
IRF2BP1	INDEL: frameshift	0.029	0.066
LRRC10B	INDEL: frameshift	0.033	0.046
MICU3	INDEL: frameshift	0.079	0.154
MSRB1	SNV: stop gain	0.015	0.048
MTCL1	SNV: stop gain	0.009	0.016
NID1	SNV: stop gain	0.008	0.016
NSUN5	SNV: splice acceptor	0.025	0.029
OR51B2	SNV: stop gain	0.208	0.396
PCDHAC2	SNV: splice donor	0.045	1.00
PRUNE2	INDEL: frameshift	0.063	0.231
QRICH1	SNV: stop gain	0.002	0.010
RDX	INDEL: frameshift	0.031	0.109
THBS3	SNV: stop gain	0.013	0.017
TP53BP1	SNV: stop gain	0.012	0.019
URB2	SNV: stop gain	0.013	0.014
ZMYM6	SNV: stop gain	0.010	0.048
ZWINT	SNV: splice acceptor	0.010	0.032

HCC hepatocellular carcinoma, VAF variant allele frequency, INDEL insertion and deletion, SNV single nucleotide variant

ISSN: 1474-760X