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Table 1 The impact of genome-wide signals on prediction accuracy (MOST vs. MOST+, K=9)

From: MOST+: A de novo motif finding approach combining genomic sequence and heterogeneous genome-wide signatures

TF

ChIP-seq Peaks

Ranking

Predicted sites

Co-factors

CTCF

39,609

1→1

27,458→43,150

0→2

ESRRB

21,647

1→1

17,144→18,998

3→4

KLF4

10,875

1→1

7,662→10,900

5→8

OCT4

3,761

1→1

2,051→2,802

3→7

cMyc

3,422

2→1

1,120→1,342

3→6

nMyc

7,182

2→1

1,853→2,519

3→4

SMAD1

1,126

9→4

119→135

4→8

E2F1

20,699

-

-

3→5

NANOG

10,343

2→1

2,844→3,012

2→3

SOX2

4,526

1→1

3,515→3,490

3→6

STAT3

2,546

1→1

1,486→1,560

4→7

TCFCP2L1

26,910

1→1

1,4568→1,4780

3→7

ZFX

10,338

1→1

4,269→7,684

3→4

  1. Column 2-5: 2) the number of ChIP-seq peaks; 3) the change of ranks for the major TFBSs (from MOST to MOST+); 4) number of predicted binding sites for each TF; 5) the change of numbers of co-factors predicted by MOST and MOST+.