Fig. 1: Overview of chr1p36.33 PDAC risk locus. | Nature Communications

Fig. 1: Overview of chr1p36.33 PDAC risk locus.

From: Allelic effects on KLHL17 expression underlie a pancreatic cancer genome-wide association signal at chr1p36.33

Fig. 1

a Locus Zoom plot of the variants identified in the meta-analysis, colors are indicative of the linkage disequilibrium (LD) r2 in reference to the tag SNP (red 0.8 < r2 ≤ 1.0; yellow 0.6 < r2 < 0.8, green 0.4 < r2 < 0.6, blue 0.2 < r2 < 0.4, purple 0 < r2 < 0.2), -log10 P-values are calculated using a logistic regression analysis and are not multiple-testing corrected. The gray-dashed line indicates the Bonferroni-corrected P-value significance threshold (5×10-8) used in GWAS; b UCSC genome browser view of chr1p36.33 with ChromHMM and ATAC-seq annotations in PDAC and normal-derived duct epithelial cell lines24; c Zoomed in UCSC browser snapshot showing the candidate functional variants and nearby genes. ChromHMM states are indicated by color: weak enhancer 1 (light green), weak enhancer 2 (dark blue), active enhancer (light blue), active element (purple), active transcriptional start site (TSS, red), bivalent TSS (yellow), polycomb repressed (light purple), quiescent (dark green). Source data are provided as a Source Data file.

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