Bioinformatics Resources

Our lab has developed popular, open source user-friendly tools for use by biologists and bioinformaticians. These encompass Network/Systems Biology approaches to analyzing large mammalian omic (particularly transcriptomic) data sets (NetworkAnalyst and InnateDB), a protein:protein interactions database, InnateDB, that is curated for immune system interactions but also incorporates all known experimentally verified and predicted interactions, and the Pseudomonas.com genome database.
NetworkAnalyst Logo

NetworkAnalyst

A fast, comprehensive web-based tool that couples statistical procedures with state-of-the-art data network visualization techniques, to enable researchers to easily navigate large complex gene expression datasets to determine important features, functions, and interconnections, leading to the generation of new biological hypotheses.

InnateDB logo

InnateDB

A popular (6 million hits per year) manually-curated database and systems biology analysis platform of all of the genes, proteins, interactions, pathways, and signaling responses involved in human, mouse and bovine innate immunity.

Pseudomonas Genome Database

A popular (6 million hits annually) database with high quality updates to the PAO1 genome annotation.