To cite RPA in publications use:

Leo Lahti et al. A fully scalable online-preprocessing algorithm for short oligonucleotide microarray atlases. Nucleic Acids Research 41(10):e110, 2013.

Leo Lahti et al. Analysis of Probe Reliability in Differential Gene Expression Studies with Short Oligonucleotide Arrays.TCBB/IEEE 8(1):217-225, 2011. See http://www.computer.org/portal/web/csdl/doi/10.1109/TCBB.2009.38

Corresponding BibTeX entries:

  @Article{,
    title = {A fully scalable online-preprocessing algorithm for short
      oligonucleotide microarray atlases},
    author = {Leo Lahti and Aurora Torrente and Laura L. Elo and Alvis
      Brazma and Johan Rung},
    journal = {Nucleic Acids Research},
    volume = {41},
    issue = {10},
    pages = {e110},
    year = {2013},
    url = {URL: http://nar.oxfordjournals.org/content/41/10/e110},
  }

  @Article{,
    title = {Analysis of Probe Reliability in Differential Gene
      Expression Studies with Short Oligonucleotide Arrays},
    author = {Leo Lahti and Laura L. Elo and Tero Aittokallio and
      Samuel Kaski},
    journal = {TCBB/IEEE},
    year = {2011},
    volume = {8},
    issue = {1},
    pages = {217--225},
    note = {R/BioC:
      http://bioconductor.org/packages/release/bioc/html/RPA.html},
    url =
      {http://www.computer.org/portal/web/csdl/doi/10.1109/TCBB.2009.38.},
  }