Table 2

Uniformity of depth by three human exome capture platforms

Filtered

Mean coverage (×)

Coverage depth (percent of bases in TR)

Coverage depth (percent of bases in FR)


Replicatea

Reads (M)

Bases (Mb)

On TR

On FR

1× to 10×

10× to 50 ×

>50×

1× to 10×

10× to 50×

>50×

NA-r1

25.5

2,280

30.8

9.3

1.3

12.3

69.8

16.6

6.8

56.2

36.8

0.2

NA-r2

27.1

2,421

30.0

8.5

1.0

11.2

73.8

14.1

7.4

53.1

33.1

0.1

NS-r1

26.1

2,338

30.1

10.8

1.7

13.0

69.7

15.6

6.1

53.1

39.5

1.3

NS-r2

25.5

2,289

30.3

9.9

1.5

13.6

68.5

16.3

6.7

56.4

35.8

1.0

AS-r1

25.7

2,222

32.7

3.5

2.1

18.6

59.5

19.8

46.8

42.7

10.1

0.4

AS-r2

25.1

2,175

32.5

3.4

2.2

19.0

59.0

19.8

47.3

42.4

9.9

0.4


For the analyses, a set of data that has 30-fold coverage on targeted regions was randomly selected for each of the six replicates. aAS, Agilent solution; NA, NimbleGen array; NS, NimbleGen solution; r1 and r2 are two replicate experiments for each platform. FR, flanking region; TR, targeted region.

Asan et al. Genome Biology 2011 12:R95   doi:10.1186/gb-2011-12-9-r95

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