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Table 2 Number of significant regions detected

From: ChIP-seq Analysis in R (CSAR): An R package for the statistical detection of protein-bound genomic regions

  

S1 vs Sc

S2-S5 vs Sc*

S6 vs Sc

S7 vs Sc

S8 vs Sc

CSAR

Total

3,235

3,306(5)

57

150

126

 

Common

3,235

3,226(2.6)

52

130

104

 

False Positives

-

2%

9%

13%

17%

QuEST

Total

985

989(11)

5,663

4,724

5,709

 

Common

985

971(4.2)

440

433

422

 

False Positives

-

2%

92%

91%

92%

CisGenome

Total

2,030

14,632(30)

9

91

169

 

Common

2,030

1,633(4)

1

24

23

 

False Positives

-

89%

89%

74%

86%

PICS

Total

2,846

1,952(24.7)

1,256

1,575

153

 

Common

2,846

1,253(5.9)

382

435

51

 

False Positives

-

36%

70%

72%

67%

MACS

Total

2,728

2,728(0)

2,821

3,687

3,624

 

Common

2,728

2728(0)

631

761

716

 

False Positives

-

0%

78%

79%

80%

  1. *Results for the in silico-modified libraries (S2-S5) are summarized with its average and standard deviation (in parenthesis)