Table 3

Summary of prediction and annotation of Pol-II promoters from published ChIP-seq datasets

Stage

D0

D1

D2

D3

D4

D6

ES Cell


Total tags

5252311

5252311

5252311

5252311

5252311

5252311

2688589


# of peaks

108416

134674

153097

140137

159599

88606

13942


# of peaks predicted as promoter

24888

25179

24510

25101

22374

15838

5889


# of predicted promoters assigned to known coding genes

10645

10632

10349

10539

9701

8153

5034


# of predicted promoters assigned to known non-coding genes

1039

1095

1088

1101

1029

708

313


# of unassigned predicted promoters (potential novel promotes)

11684

13452

13673

13461

11644

6977

542


Gupta et al. BMC Bioinformatics 2010 11(Suppl 1):S65   doi:10.1186/1471-2105-11-S1-S65

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