FAQ (Frequent Asked Questions)

  • What does RCPedia stands for?
  • RCPedia is short for RetroCoPy encyclopEDIA.

  • What are retrocopies?
  • A retrocopy is the result of the process in which mRNAs are reverse-transcribed into cDNA and insert back into a new position on the genome, usually by a retroelement machinery. Since the retrocopies are based on mature mRNA they lack many of their parental genes genetic features, such as introns and regulatory elements.

  • And... Why are they meaningful?
  • Since retrocopies, ab initio, share high sequence similarity with their parental sequence, one might point out many putative functions for these genomic loci. If they happen to recruit upstream regulatory elements and become expressed, they may play functional roles such as code for proteins similar to their parental sequence but in a different context or, as recently described participate in post-transcriptional regulatory process. We also believe that retrocopies may play an important role on evolution of species.

  • Where are the expression data coming from?
  • We are very thankful to projects that make their RNA-seq data publicly available, mainly transcriptome data from Chimpanzee, Gorilla, Orangutan and Rhesus. Namely, we use publicly available data from:

    - The evolution of gene expression levels in mammalian organs. (2011). The evolution of gene expression levels in mammalian organs., 478(7369), 343–348. doi:10.1038/nature10532
    - Insights into hominid evolution from the gorilla genome sequence. (2012). Insights into hominid evolution from the gorilla genome sequence., 483(7388), 169–175. doi:10.1038/nature10842

  • I've found a BUG on XX! or This retrocopy YY is not a retrocopy! Or yet, This retrocopy ZZ is missing
  • We would be really grateful if you let us know how we can enhance the database quality. For that, we make available the Feedback link.

    This link is available on all RCPedia pages and redirects you to a contact form which already has the URL you are coming from. Give us some details and, if necessary, we will reply you back as soon as possible.

  • I've found something very interesting with RCPedia, how do I cite you guys?
  • About that... We still don't have a paper for RCPedia, but this should change very soon. For now, please refer to the Publications link on the top of the page for more details.

  • Can I help anyway?
  • Yes you can! Please give us feedback and suggestions about the database and the front-end. Since RCPedia gathers a lot of data we need your help to keep the database accurate. Let us know your opinion through the contact form.