Table 5.

Putative pharmacogenomic candidate SNPs related to treatment response. From the set of 22 named transcripts, 7 genes had significant associations between expression and SNP genotypes according to the mRNA by SNP Browser. Of these 7 genes, the actual expression and genotypes of CXCL10 were associated with treatment response in the 30 subjects measured in this study. When the Illumina array SNP listed in the mRNA SNP Browser was not represented on the Affymetrix array, the nearest Affymetrix SNP chip probeset in high linkage disequilibrium with the Illumina array SNP was identified.

Gene Symbol	Probeset	Illumina SNP	P value from mRNA by SNP Browser	LOD	Nearest Affymetrix SNP chip probeset	r 2	D′
TAF6	203572_s_at	rs13309	3.6 × 10−9	7.6	SNP_A-2111153	0.14	0.7
GCLM	236140_at	rs7515191	1.5 × 10−17	15.8	SNP_A-1807012	0.2	1
CCT5	229068_at	rs544	2.9 × 10−9	7.7	SNP_A-1980667	1	1
ARID3A	205865_at	rs1051504	1.1 × 10−14	13	SNP_A-2145232	0.18	1
CXLC10	204533_at	rs8878	3.7 × 10−9	7.5	SNP_A-1871392	∗	∗
USP31	1558117_s_at	rs10492970	1.2 × 10−7	6.1	SNP_A-1791706	∗	∗
GPX7	213170_at	rs835342	2.0 × 10−18	16.6	SNP_A-2236769	∗	∗

*Illumina SNPs and Affymetrix SNPs were identical.