CpGislandEVO is a powerful platform to investigate the function of CpG islands, as well as the evolutionary mechanisms which generate and maintain these key epigenome markers. A CpG-island database for the best assembled mammalian genome sequences is coupled to a next-generation genome browser. This allows linking together both experimental and predicted CGIs, as well as single-cytosine-resolution DNA methylation data.

References

  • Guillermo Barturen, Stefanie Geisen, Francisco Dios, E. J. Maarten Hamberg, Michael Hackenberg, and José L. Oliver, CpGislandEVO: A Database and Genome Browser for Comparative Evolutionary Genomics of CpG Islands, BioMed Research International, vol. 2013, Article ID 709042, 6 pages, 2013.doi:10.1186/1471-2105-7-446
  • M.Hackenberg, C. Previti, P.L. Luque-Escamilla,J. Martinez-Aroza and J.L. Oliver. 2006. CpGcluster: A distance-based algorithm for CpG-island detection BMC Bioinformatics 2006, 7:446 doi:10.1186/1471-2105-7-446
  • Michael Hackenberg, Guillermo Barturen, Pedro Carpena, Pedro L. Luque Escamilla, Christopher Previti, José L. Oliver. 2010.
    Prediction of CpG-island function: CpG clustering vs. sliding-window methods. BMC Genomics 2010, 11:327. doi:10.1186/1471-2164-11-327
  • Michael Hackenberg, Pedro Carpena, Pedro Bernaola-Galván, Guillermo Barturen, Ángel M. Alganza and José L. Oliver. 2011. WordCluster: detecting clusters of DNA words and genomic elements Algorithms for Molecular Biology 6:2 doi:10.1186/1748-7188-6-2