Table 1

Total sizes of the six types of genomic regions derived from transcription factor binding data in the five cell lines

Region type

GM12878

H1-hESC

HeLa-S3

Hep-G2

K562


Binding active regions (BARs)

109 Mbp (3.5%)

78.8 Mbp (2.6%)

93.6 Mbp (3.0%)

88.8 Mbp (2.9%)

98.7 Mbp (3.2%)

Binding inactive regions (BIRs)

1,390 Mbp (45%)

1,200 Mbp (39%)

1,330 Mbp (43%)

401 Mbp (13%)

1,010 Mbp (33%)

Promoter-proximal regulatory modules (PRMs)

25.4 Mbp (0.82%)

15.5 Mbp (0.50%)

20.7 Mbp (0.67%)

17.1 Mbp (0.55%)

24.3 Mbp (0.79%)

Gene-distal regulatory modules (DRMs)

24.6 Mbp (0.80%)

18.2 Mbp (0.59%)

25.3 Mbp (0.82%)

21.1 Mbp (0.68%)

22.0 Mbp (0.71%)

High occupancy of TF (HOT) regions (whole genome)

25.9 Mbp (0.84%)

26.4 Mbp (0.86%)

25.6 Mbp (0.83%)

26.3 Mbp (0.85%)

26.6 Mbp (0.86%)

High occupancy of TF (HOT) regions (intergenic regions only)

5.82 Mbp (0.19%)

6.43 Mbp (0.21%)

6.70 Mbp (0.22%)

6.74 Mbp (0.22%)

5.18 Mbp (0.17%)

Low occupancy of TF (LOT) regions (whole genome)

24.7 Mbp (0.80%)

23.5 Mbp (0.76%)

22.8 Mbp (0.74%)

23.8 Mbp (0.77%)

24.2 Mbp (0.78%)

Low occupancy of TF (LOT) regions (intergenic regions only)

10.7 Mbp (0.35%)

11.0 Mbp (0.36%)

10.1 Mbp (0.33%)

10.7 Mbp (0.35%)

12.4 Mbp (0.40%)


Numbers in parentheses are the percentages of the whole human genome covered by the regions. Intergenic regions are defined as regions at least 10 kbp from any level 1 or level 2 gene defined in Gencode version 7.

Yip et al. Genome Biology 2012 13:R48   doi:10.1186/gb-2012-13-9-r48

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