Phylogeny based discovery of regulatory elements

  title={Phylogeny based discovery of regulatory elements},
  author={Jason Gertz and Justin C. Fay and Barak A. Cohen},
  journal={BMC Bioinformatics},
  pages={266 - 266}
Algorithms that locate evolutionarily conserved sequences have become powerful tools for finding functional DNA elements, including transcription factor binding sites; however, most methods do not take advantage of an explicit model for the constrained evolution of functional DNA sequences. We developed a probabilistic framework that combines an HKY85 model, which assigns probabilities to different base substitutions between species, and weight matrix models of transcription factor binding… CONTINUE READING



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