Table 5

Comparisons of motifless binding peaks and our HOT regions

Cell line

1. TF binding peaks

2. HOT regions

3. HOT regions within TF binding peaks

4. Motifless binding peaks

5. Intersection of #3 and #4

6. Z-score of intersection


GM12878

WG

123,982 (125 Mbp)

92,592 (25.9 Mbp)

77,583 (22.9 Mbp)

69,568 (17.4 Mbp)

43,581 (8.68 Mbp)

86.5

IR

37,746 (29.5 Mbp)

21,465 (5.82 Mbp)

17,647 (5.02 Mbp)

18,973 (4.67 Mbp)

10,568 (2.07 Mbp)

49.8

H1-hESC

WG

98,963 (81.8 Mbp)

105,036 (26.4 Mbp)

74,727 (20.4 Mbp)

38,631 (8.91 Mbp)

25,042 (4.59 Mbp)

42.0

IR

32,540 (20.8 Mbp)

27,212 (6.43 Mbp)

18,399 (4.73 Mbp)

11,242 (2.55 Mbp)

6,267 (1.13 Mbp)

25.3

HeLa-S3

WG

112,657 (100 Mbp)

95,054 (25.6 Mbp)

57,045 (17.0 Mbp)

47,556 (13.4 Mbp)

26,112 (5.18 Mbp)

46.5

IR

36,252 (26.1 Mbp)

25,733 (6.70 Mbp)

14,822 (4.30 Mbp)

13,872 (3.81 Mbp)

7,023 (1.40 Mbp)

38.2

Hep-G2

WG

193,990 (131 Mbp)

95,998 (26.3 Mbp)

64,147 (19.1 Mbp)

63,523 (16.1 Mbp)

31,179 (6.32 Mbp)

75.4

IR

67,013 (36.9 Mbp)

25,402 (6.74 Mbp)

15,565 (4.50 Mbp)

18,162 (4.54 Mbp)

7,492 (1.52 Mbp)

58.2

K562

WG

159,029 (140 Mbp)

81,436 (26.6 Mbp)

59,716 (19.8 Mbp)

71,912 (19.8 Mbp)

37,108 (8.03 Mbp)

63.4

IR

48,966 (34.9 Mbp)

17,994 (5.18 Mbp)

12,884 (3.84 Mbp)

18,194 (4.80 Mbp)

8,057 (1.67 Mbp)

53.4


In each cell, the number of regions is given, followed by the total length of DNA covered in parentheses. IR, intergenic regions; WG, whole genome.

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

Open Data