The Institute of Ecology and Evolution, University of Oregon IEE University of Oregon

Software

Stacks

Stacks is a software pipeline for building loci out of a set of short-read sequenced samples. Stacks was developed for the purpose of building genetic maps from RAD-Tag Illumina sequence data, but can also be readily applied to population studies, and phylogeography.

The Synteny Database

The Synteny Database is a system built to detect conserved synteny -- the tendency of neighboring genes to retain their relative positions and orders on chromosomes over evolutionary time (synteny: syn, same; tene, thread). Given a source genome and an outgroup genome the Synteny Database can detect regions of conserved synteny within the source genome (paralogons), or between the source and outgroup genomes. The system was built with special care to detect paralogons originating from whole-genome duplication. The Synteny Database is meant to aid the study of the evolutionary history of gene families across multiple lineages.

Cresko Laboratory, Center for Ecology and Evolution at the University of Oregon
News Brief

January 2017 - Kristin Alligood successfully defends Ph.D.


January 2017 - Allison Fuiten is awarded a DDIG from the NSF. See Lab News for more.


December 2016 - Gulf Pipefish genome paper published.


November 2016 - Bill Cresko elected AAAS Fellow.


April / July 2016 - Cresko Lab members receive six conference awards for posters or talks. See Lab News for more.


January / February 2016 - Susan Bassham appears in a short documentary and a more in-depth interview relating to the lab's recently published Middleton Island work. See Lab News or the link below for more.


December 2015 - "Evolution of stickleback in 50 years on earthquake-uplifted islands" paper published.


Lab News