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Communication Dans Un Congrès Année : 2013

Assessing the enrichment significance of a possition weight matrix (PWM) along a DNA sequence

Julien J. Dumazert
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  • PersonId : 957046
Jean-Yves J.-Y. Stephan
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  • PersonId : 957047

Résumé

We present a novel statistical approach to evaluate if a given Position Weight Matrix (PWM) is significantly enriched in a given sequence. We define the weighted count of a PWM in a sequence without choosing any arbitrary threshold and we propose a compound Poisson approximation for the weighted count distribution, which appears more accurate than a Gaussian distribution. Our method, called PWMstat, is based on an efficient algorithm to simulate the ad-hoc compound Poisson distribution and provides then an enrichment p-value. By comparison with Bioprospector, an existing motif discovery tool, we obtained that Bioprospector scores do not generally reflect well the enrichment significance of a PWM. Our method is illustrated on the Noc binding site in Bacillus subtilis.
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Dates et versions

hal-01000956 , version 1 (03-06-2020)

Identifiants

  • HAL Id : hal-01000956 , version 1
  • PRODINRA : 199711

Citer

Julien J. Dumazert, Jean-Yves J.-Y. Stephan, Marie Agnes M. A. Petit, Sophie S. Schbath. Assessing the enrichment significance of a possition weight matrix (PWM) along a DNA sequence: ρ. JOMBIM 2013 - quatorzième édition des Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2013, Toulouse, France. pp.25-34. ⟨hal-01000956⟩
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