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Figure 3 | BMC Bioinformatics

Figure 3

From: HAT: Hypergeometric Analysis of Tiling-arrays with application to promoter-GeneChip data

Figure 3

Graphical output of a detected region-of-interest from the cebpa -study. It was confirmed with qPCR that the Cebpa protein targets and regulates the proximal promoter region of the il-6 receptor alpha gene, which lies downstream of the region-of-interest (negative DNA strand). The top panel (A), indicates the probes, represented as vertical blue lollipops, the left y-axis the probe-intensities, and the right y-axis illustrates the contribution of each probe separately to the region (probe-significance). The x-axis indicates the genomic probe positions, and illustrates with a downwards facing green bar; the sequence-of-interest. The sequence, 'CCAAT', was found on the negative DNA strand. Furthermore, flanking genes to this detected region are indicated with distances in base pairs to the 5' transcriptional start site. In the bottom panel (B), the detected regions-of-interest for various windows and probes are shown. The colors represent the detection of regions-of-interest, for a number of different top probes and window sizes. The merged region-of-interest has a fragment width of 853 bp, and lies in the proximal promoter region of il6ra on the negative DNA strand.

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