PhyloGibbs: A Gibbs Sampling Motif Finder That Incorporates Phylogeny

@article{Siddharthan2005PhyloGibbsAG,
  title={PhyloGibbs: A Gibbs Sampling Motif Finder That Incorporates Phylogeny},
  author={Rahul Siddharthan and Eric D. Siggia and Erik van Nimwegen},
  journal={PLoS Computational Biology},
  year={2005},
  volume={1},
  pages={723 - 750}
}
A central problem in the bioinformatics of gene regulation is to find the binding sites for regulatory proteins. One of the most promising approaches toward identifying these short and fuzzy sequence patterns is the comparative analysis of orthologous intergenic regions of related species. This analysis is complicated by various factors. First, one needs to take the phylogenetic relationship between the species into account in order to distinguish conservation that is due to the occurrence of… CONTINUE READING
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