We develop bioinformatics tools to help process genetic data. From software packages to databases, our tools help researchers gain insight from their data.
Geospatial Phylogenetic Software
We have created tools to generate and share knowledge about evolution and biogeography. We often use these tools to understand the spread of infectious diseases over time, space, and various hosts. However other groups have used the tools to study the movement of many organisms.
We are working on whole genomes for Holthuroids and Ophiuoids as part of an NIH-funded effort in regeneration biology. A product of our NSF work is EchinoDB. EchinoDB is a database consisting of amino acid sequence othoclusters from over 40 echinoderm transcriptomes. Taxa are sampled to span the deepest divergences within each of the five extant echinoderm classes. Data can be searched by BLASTX or BLASTP or annotation database identifiers from the Strongylocentrotus purpuratus reference protein set at NCBI.