Identifying Conserved Discriminative Motifs

  • Jyotsna Kasturi
  • Raj Acharya
  • Ross Hardison
Conference paper
Part of the Lecture Notes in Computer Science book series (LNCS, volume 5265)

Abstract

The identification of regulatory motifs underlying gene expression is a challenging problem, particularly in eukaryotes. An algorithm to identify statistically significant discriminative motifs that distinguish between gene expression clusters is presented. The predictive power of the identified motifs is assessed with a supervised Naïve Bayes classifier. An information-theoretic feature selection criterion helps find the most informative motifs. Results on benchmark and real data demonstrate that our algorithm accurately identifies discriminative motifs. We show that the integration of comparative genomics information into the motif finding process significantly improves the discovery of discriminative motifs and overall classification accuracy.

Keywords

Discriminative motifs regulatory elements comparative genomics classification Naïve Bayes mutual information 

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Copyright information

© Springer-Verlag Berlin Heidelberg 2008

Authors and Affiliations

  • Jyotsna Kasturi
    • 1
    • 2
  • Raj Acharya
    • 2
  • Ross Hardison
    • 3
    • 4
  1. 1.Non-Clinical Biostatistics, Johnson & Johnson Pharmaceutical Research & Development, New JerseyUSA
  2. 2.Department of Computer Science and EngineeringUSA
  3. 3.Center for Comparative Genomics and BioinformaticsHuck Institutes of Life SciencesUSA
  4. 4.Department of Biochemistry and Molecular BiologyPennsylvania State UniversityUSA

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