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Table 1 Comparison of TFBS prediction scores between test vs. random gene sets.

From: Motif prediction to distinguish LPS-stimulated pro-inflammatory vs. antibacterial macrophage genes

Matrix Accession Number

TF name

MEME

MEME

Motif Modeler

Motif Modeler

PASTAA

PASTAA

  

E-value*

E-value**

TCS score*

TCS score**

P-value*

P-value**

M01014

SOX

1.60E+07

-

1.49E-02

7.06E-03

2.99E-01

7.38E-01

M00699

IRF-8

6.90E-01

-

1.50E-02

-

3.50E-05

9.51E-01

M00233

MEF-2

1.60E+07

-

1.54E-02

6.91E-03

5.75E-01

7.68E-01

M00062

IRF-1

2.60E-07

-

1.55E-02

6.86E-03

7.40E-05

-

  1. * Score from the test gene set
  2. ** Score from random gene set
  3. Blank cells represent TFBS that were not identified by the respective tool in the test or random set. For MotifModeler, higher the TCS score better the prediction whereas for PASTAA, lower the P-value better the prediction.