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Figure 5 | BMC Medical Genomics

Figure 5

From: On the identification of potential regulatory variants within genome wide association candidate SNP sets

Figure 5

Visualizing Lung.cancer and Breast.cancer LD80 SNPs with TAF ChIP-seq binding data. The relative regulatory potential is plotted along the x-axis, as in FigureĀ 4. The y-axis displays the number of TAF ChIP-seq data sets reporting binding in multiple cells examined in this study: A549, H1 embryonic stem, HCT-116, MCF-7 cells. Each dot represents a SNP within the Lung.cancer (A) and Breast.cancer (B) LD80 lists. SNPs with zero regulatory potential indices in both cells are represented in gray dots, whereas those with regulatory potential in both cancer and normal cells are labeled and colored in blue. SNPs with only regulatory potential observed in cancer or normal cells are colored in red and green, respectively. The red arrows in B highlight a set of correlated SNPs, rs1391720, rs1391721 and rs1292011 that overlaps 15 to 16 TAF ChIP-seq peaks. ChIP-seq datasets used are detailed in the supplementary information (Additional file 2).

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