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Figure 8 | Genome Biology

Figure 8

From: Cis-regulatory somatic mutations and gene-expression alteration in B-cell lymphomas

Figure 8

Examples of predicted cis-regulatory mutations potentially impacting gene expression. HAS2 (A,B,C,D,E) and GNA13 (F,G,H,I,J) have been predicted by xseq for samples RG116 and SA320848, respectively. In RG116, a CEBPA TFBS (TF binding profile in (A)) is predicted to be disrupted (see reference and alternative sequences in (B) where the SNV is highlighted with the reference nucleotide in green and the alternative in purple). Score differences between the reference TFBS and all possible alternative TFBSs are plotted in (C). The distribution of HAS2 expression from RNA-seq data is plotted in (D) with an arrow pointing to the expression value in sample RG116. (E) represents the network of genes associated with HAS2, which are predicted to be either down- (blue) or up-regulated (red) in RG116. The higher the opacity, the stronger the down- or up-regulation. Similar plots are given in (F,G,H,I,J) for GNA13 in SA320848 with a potentially disrupted GATA3 TFBS. alt., alternative; ref., reference; SNV, single nucleotide variant.

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