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Table 2 Comparison of p-values calculated by the AHOPRO program, by Monte Carlo simulations and by compound Poisson distribution formula under the M0 model

From: Exact p-value calculation for heterotypic clusters of regulatory motifs and its application in computational annotation of cis-regulatory modules

MOTIF, CUTOFF

OCC.

AHOPRO

MONTE CARLO

POISSON

AHOPRO/MC

AHOPRO/POISSON

bcd, 5.3

3

0.012

0.012

0.010

1.00

1.10

kr, 5.0

4

0.0044

0.0044

0.0033

1.01

1.34

hb, 6.2

2

0.013

0.013

0.012

0.99

1.04

bcd & kr

3&4

0.00025

0.00026

3.6E-05

0.99

7.10

bcd & kr & hb

3&4&2

6.54E-06

5.8E-06

4.34E-07

1.13

7.13

  1. Comparison of p-values calculated for the Markov(0) model by the AHOPRO program with p-values calculated by Monte Carlo simulations and by Poisson formula for motifs of D. melanogaster developmental transcription factors bicoid, kruppel and hunchback.
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Algorithms for Molecular Biology

ISSN: 1748-7188