Supplementary Figure 6: eQTL analyses performed in the TANC1 locus with Genevar in HapMap populations. | Nature Genetics

Supplementary Figure 6: eQTL analyses performed in the TANC1 locus with Genevar in HapMap populations.

From: A three-stage genome-wide association study identifies a susceptibility locus for late radiotherapy toxicity at 2q24.1

Supplementary Figure 6

(a) Gene-centric analysis results. Observed eQTL SNPs (eSNPs) are visualized as a regional plot (1 Mb), where a dotted line represents the P-value threshold (0.01). The blue box highlights where rs264663 is located. rs264663 does not reach the MAF threshold of 0.05 in the CEU populations required by Genevar to be analyzed. Note, however, that the SNP is found in the locus containing the eSNPs with the lowest P values. (b) Best candidate eSNPs after runing 10,000 permutations identified by gene-centric analysis. The red box highlights rs264663. ρ, Spearman's rank correlation coefficient; P, P value; Pemp, adjusted P value after running 10,000 permutations. (c) SNP-gene association analysis results. (d,e) SNP-centric analysis results. Note that positions refer to assembly NCI36/hg18. According to this assembly, TANC1 is located between coordinates 159,533,392 and 159,797,412.

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