Research article

Phylogeny based discovery of regulatory elements

Jason Gertz, Justin C Fay and Barak A Cohen^*

Department of Genetics, Washington University School of Medicine, 4444 Forest Park Parkway, St. Louis, MO 63108, USA

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BMC Bioinformatics 2006, 7:266 doi:10.1186/1471-2105-7-266

Published: 22 May 2006

Additional File 1:

Significantly conserved hexamers, Lists all hexamers that are conserved a significant fraction of the time.

Format: TXT Size: 1KB Download file

Additional File 2:

Binding Site Predictions, Lists all count matrices for binding sites predictions that do not match known sites.

Format: TXT Size: 3KB Download file

Additional File 3:

Yeast Phylogenetic Tree, Synonymous rate tree used, branch lengths are measured in number of substitutions per site.

Format: TIFF Size: 74KB Download file

Additional File 4:

Positive tails of the distributions of ln(λ) for neutrally evolving simulation of all pentamers (A), hexamers (B) and heptamers (C).

Format: TIFF Size: 271KB Download file