Systems Biology for Infectious Diseases Research

Programs

Systems Biology of EnteroPathogens—Battelle, Pacific Northwest National Laboratory

http://www.sysbep.org/

The objective of the Systems Biology of EnteroPathogens project is to apply a systems biology approach, consisting of iterative and complementary computational and experimental methodologies to analyze, identify, quantify, model, and predict the overall molecular processes involved in the pathogenesis of Salmonella and Yersinia species in macrophages. The program premise is that knowledge gained from the coordinated analysis and modeling of these two genera within the family Enterobacteria will lead to improved control and therapeutic treatment strategies not only for these specific pathogens, but more generally for related gram negative bacteria.

Dr. Josh Adkins, Principal Investigator, Pacific Northwest National Laboratory

SBEP Research Teams

Proteomics and Metabolomics Core

Dr. Josh Adkins, Pacific Northwest National Laboratory

Applying cutting edge separations coupled to mass spectrometry-based proteomics and metabolomics/lipidomics. Provide a portal for dissemination of sample matched datasets and center developed research products.

Salmonella Project Research

Dr. Fred Heffron, Oregon Health and Sciences University

Perform Salmonella experiments, mutagenesis, and sample development.

Yersinia Research Project

Dr. Vladimir Motin, University of Texas Medical Branch

Perform Yersinia experiments, mutagenesis, and sample development.

Transcriptomics Core

Dr. Scott Peterson, J. Craig Venter Institute (JCVI)

Perform transcriptomic and genomic analyses using array-based technologies.

Informatics Core

Mr. Gordon Anderson, Pacific Northwest National Laboratory

Develop tools for processing and integrating massive data generated by the –omics core.

Modeling Core

Dr. Bernhard O. Palsson, University of California, San Diego

Develop community-base consensus genome scale metabolic and regulatory reconstructions to enable omics data integration for computational models.

Pathogens

This research project focuses on Yersinia pestis and Salmonella typhimurium which are included in the NIAID (Category A and B) priority pathogen list and have been partially characterized by other NIAID-supported programs (the Pathogen Functional Genomics Resource Center at JCVI).