FootPrinter

From BioPerl

Phylogenetic footprinting is a method that identifies putative regulatory elements in DNA sequences. It identifies regions of DNA that are unusually well conserved across a set of orthologous sequences[1, 2, 3, 4]. For more information and a download, see here.

References

1. Blanchette M and Tompa M. FootPrinter: A program designed for phylogenetic footprinting. Nucleic Acids Res 2003 Jul 1; 31(13) 3840-2. pmid:12824433. PubMed HubMed [footprinter1]
2. Fang F and Blanchette M. FootPrinter3: phylogenetic footprinting in partially alignable sequences. Nucleic Acids Res 2006 Jul 1; 34(Web Server issue) W617-20. doi:10.1093/nar/gkl123 pmid:16845084. PubMed HubMed [footprinter2]
3. Blanchette M and Tompa M. Discovery of regulatory elements by a computational method for phylogenetic footprinting. Genome Res 2002 May; 12(5) 739-48. doi:10.1101/gr.6902 pmid:11997340. PubMed HubMed [footprinter3]
4. Blanchette M, Schwikowski B, and Tompa M. Algorithms for phylogenetic footprinting. J Comput Biol 2002; 9(2) 211-23. doi:10.1089/10665270252935421 pmid:12015878. PubMed HubMed [footprinter4]

All Medline abstracts: PubMed HubMed