Table 1

TCF7L2 binding sites and target genes

Total peaks

Nearest genes

Peaks per gene


HCT116

30,259

10,910

2.8

HEK293

24,457

6,254

3.9

HepG2

27,912

7,899

3.5

MCF7

27,721

6,934

4.0

HeLa

52,810

11,334

4.7

PANC1

31,744

9,438

3.4

Common

1,864

1,287

1.4

Total unique

116,270

14,193

8.2


Peaks were called using the BELT program on the merged duplicate datasets for each cell type. Reported as the 'Total peaks' is the total number of TCF7L2 binding sites in each cell line, as well as the total number of unique peaks when all six cell lines are considered together and the peaks identified as being common to all six cell lines. To determine the number of 'Nearest genes', the RefSeq gene nearest each TCF7L2 binding site was identified and duplicates were removed (since TCF7L2 has multiple binding sites near many genes), and the resultant number is indicated as the total number of target genes for that peak set.

Frietze et al. Genome Biology 2012 13:R52   doi:10.1186/gb-2012-13-9-r52

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