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Figure 2 | BMC Bioinformatics

Figure 2

From: An eQTL biological data visualization challenge and approaches from the visualization community

Figure 2

The Visualization Experts' pick. (a) Association gene network ed from all pairs of 3843 SNPs with a significant association (p < 0.05, PLINK two-locus results) with the gene expression of the 15 genes and filtered such that only SNP pairs containing at least one highly significant SNP (R2 > 0.1 and p < 0.05, PLINK single locus results) remain. All edges with weight w ≥ 40 are shown. Nodes represent genes, edges represent significant SNP pairs. Genes significantly associated with SNP pairs are colored using a distinct color, genes with no significant association are drawn with gray fill. Each edge conveys four pieces of information: An edge e of weight w starting in node s, ending in node t and drawn with color c represents w SNP pairs, where each of them has one SNP in gene s and one in gene t. These SNP pairs are significantly associated with the expression of the gene whose node is filled with color c; (b) Aggregated iHAT visualization of 29 visually selected SNPs where the 'affected' and 'not affected' groups display different colors.

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