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Table 2 Peak features obtained using the individual, union and intersection methods

From: An improved ChIP-seq peak detection system for simultaneously identifying post-translational modified transcription factors by combinatorial fusion, using SUMOylation as an example

 

Peak #

TFBS peak #

TFBS #

Methods

Total

Promoter

Total

Promoter

Total

Promote

MACS = M

53,972

10,282

15,428

3,934

110,779

27,615

CisGenome = C

32,158

12,069

7,153

4,640

30,828

5,322

T-PIC = T*

459,962

37,923

99,986

20,735

477,353

20,008

BayesPeak = B

241,257

35,349

102,905

9,188

220,182

48,710

M+C+T

465,103

31,096

100,484

15,352

460,753

39,449

M+T

460,503

38,023

100,417

20,775

477,996

22,042

M+C

65,605

32,588

17,643

7,400

120,964

54,569

C+T

462,622

43,355

100,284

20,735

478,565

22,008

M*C*T

20,349

9,834

4,834

3,604

20,525

3,860

M*T

50,655

17,246

15,274

9,312

128,473

10,526

M*C

20,525

9,852

4,863

3,612

20,643

3,874

C*T

30,158

11,914

6,780

4,637

29,616

4,956

  1. * p-value < 0.001