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Table 3 Motifs that are not enriched in untreated MCF10A-ER-Src cells but that are enriched in tamoxifen-treated cells

From: Differential motif enrichment analysis of paired ChIP-seq experiments

FOS

4 hr

 

12 hr

 

36 hr

 

Motif

E-value

Motif

E-value

Motif

E-value

STAT1

5.7e-22

STAT1

1.6e-24

STAT1

1.5e-17

SPI1

0.003

REL

2.7e-09

BSX_DBD

0.8

CTCF

3.1

NF-kappaB

7.4e-09

UNCX_DBD

7.3

NFKB2_DBD

6.7

NFKB2_DBD

2.2e-05

PDX1_DBD_2

8.8

SPIB

27

NFKB1

8.5e-05

Dbp_DBD

17

RXR::RAR_DR5

159

ETS1

0.00057

NKX6-2_full

28

SP1

159

CTCF

0.0065

HNF1A_full

45

INSM1

177

SPIB

0.8

POU6F2_full

48

NFKB1

239

Spic_DBD

177

Dlx2_DBD

50

RARG_full_3

557

SPI1

212

Lhx8_DBD_2

50

MYC

 

STAT3

4 hr

 

12 hr

 

36 hr

 

Motif

E-value

Motif

E-value

Motif

E-value

STAT1

1.1e-08

AP1

9.7e-33

MEOX2_DBD

0.0077

NF-kappaB

0.0088

Hoxa2_DBD

42

DLX5_FL

0.11

NFKB1

1.2

SPIB_DBD

53

En2_DBD

0.13

NFKB1_DBD

9.7

POU1F1_DBD

239

POU1F1_DBD

0.22

NFKB2_DBD

9.7

VAX2_DBD

265

Meox2_DBD

0.57

EN1_full_2

12

En2_DBD

309

Hoxa2_DBD

0.7

NR2E1_full

15

MZF1_1-4

398

VAX1_DBD

1.6

TEAD1_full

23

ZIC3_full

415

EMX2_DBD

2.4

MEOX2_DBD

33

Nkx6-1_DBD

424

HOXB5_DBD

2.5

MZF1_1-4

36

HMBOX1_DBD

442

EVX2_DBD

4.5

  1. The table shows the most differentially enriched motifs in ChIP-seq peaks in tamoxifen treated cells where the motif is not significantly enriched (E-value ≥1) in the untreated MCF10A-ER-Src cells. The first two lines show the ChIP-ed TF and the tamoxifen treatment time, respectively. The name of the JASPAR or Jolma et al.[3] motif and the significance of its differential enrichment (Fisher E-value) as computed by CentriMo are given and each column in the table is sorted by E-value. Significant (≤0.05) E-values are shown in bold font.
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BMC Genomics

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