Fig. 3: Detailed graph of the associated locus on chr13. | npj Precision Oncology

Fig. 3: Detailed graph of the associated locus on chr13.

From: Genome-wide analyses reveals an association between invasive urothelial carcinoma in the Shetland sheepdog and NIPAL1

Fig. 3

LD between the top SNP and all others in the region is indicated by the color of the markers with red indicating highest value. Positions of predicted active regulatory regions are in the second panel. The third panel contains positions of the associated SNPs within the shared haplotype with the presumed functional SNP highlighted in green. The bottom panel contains regulatory regions from ChIPseq as well as gene annotations. Each gene is represented by the longest transcript from the Broad Improved Canine Annotation v.1 (UCSC). The components are plotted against the CanFam3.1 genome using custom tracks in the UCSC browser (http://genome.ucsc.edu). Genes highlighted in red were upregulated in iUC tumors34.

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