To cite package ‘DiffBind’ in publications use:

  Stark R and Brown G (2011). DiffBind: differential binding analysis
  of ChIP-Seq peak data. Bioconductor
  http://bioconductor.org/packages/release/bioc/vignettes/DiffBind/inst/doc/DiffBind.pdf

A BibTeX entry for LaTeX users is

  @Manual{,
    title = {DiffBind: differential binding analysis of ChIP-Seq peak data},
    author = {Rory Stark and Gordon Brown},
    year = {2011},
    url = {http://bioconductor.org/packages/release/bioc/vignettes/DiffBind/inst/doc/DiffBind.pdf},
  }

  Ross-Innes, C. S., Stark, R., Teschendorff, A. E., Holmes, K. A.,
  Ali, H. R., Dunning, M. J., Brown, G. D., Gojis, O., Ellis, I. O.,
  Green, A. R., Ali, S., Chin, S.-F., Palmieri, C., Caldas, C., and
  Carroll, J. S. (2012). Differential oestrogen receptor binding is
  associated with clinical outcome in breast cancer. Nature 481,
  389-393.

A BibTeX entry for LaTeX users is

  @Article{,
    title = {Differential oestrogen receptor binding is associated with clinical outcome in breast cancer},
    author = {Caryn S. Ross-Innes and Rory Stark and Andrew E. Teschendorff and Kelly A. Holmes and H. Raza Ali and Mark J. Dunning and Gordon D. Brown and Ondrej Gojis and Ian O. Ellis and Andrew R. Green and Simak Ali and Suet-Feung Chin and Carlo Palmieri and Carlos Caldas and Jason S. Carroll},
    journal = {Nature},
    year = {2012},
    volume = {481},
    pages = {-4},
    url = {http://www.nature.com/nature/journal/v481/n7381/full/nature10730.html},
  }