Main Page

From QuigleyWiki
Revision as of 22:29, 1 October 2015 by IanQuigley (Talk | contribs)

Jump to: navigation, search


Genomics is pretty awesome. These days, you can sequence entire transcriptomes, find all the binding sites of a specific transcription factor, determine every position of modified histones, and map 3D chromosomal conformation.

As an experimental model, the African clawed frog Xenopus laevis is also pretty awesome. You can culture intact tissue, elicit cell fate changes in a snap, do live imaging, do biochemistry, and you can tag any protein you want and have it expressed in a living embryo in about a week.

However, it's been really hard to do both awesome things at once. Until now.

Here is a repository of genomics tools and methods optimized for use in X. laevis. Please use them! While the downloadable reference databases are for frog, the general approaches described here will work for most organisms, including obscure ones purchased from pet suppliers. Pet store genomics is wholly worth doing. Seriously.

This repository is run by Ian Quigley, a postdoc in Chris Kintner's group at the Salk Institute. It was partly inspired from discussions at the Xenopus Bioinformatics Course, run by the National Xenopus Resource, at Woods Hole. Lectures from that course can be found here.