Prokaryotic Systems Biology

Nevan Krogan, PhD, is a professor at the UCSF School of Medicine in the Cellular Molecular Pharmacology department. Dr. Krogan’s lab focuses on applying global proteomic and genomic approaches to formulate hypotheses about various biological processes, including transcriptional regulation, DNA repair/replication and RNA processing. His lab at UCSF is now developing and applying methodologies to create genetic and physical interactions between pathogenic organisms, including HIV, Mtb, and Dengue, and their hosts, which is providing insight into the human pathways and complexes that are being hijacked during the course of infection.Mohan Babu, PhD, is an Assistant Professor in the Department of Biochemistry at the University of Regina. Dr. Babu currently holds a CIHR New Investigator award and is a Maud-Menten Finalist of the CIHR Institute of Genetics. He is a member of the Canadian Society of Microbiology, Human Proteome Organization, and Canadian National Proteomics Network. Dr. Babu has developed and applied advanced proteomic, functional genomic, and bioinformatic methods to characterize genome-wide protein and epistatic interaction networks in the budding yeast and gram-negative bacterium, and mammalian cell systems. His group also developed advanced proteomics using affinity purification coupled with mass spectrometry technology to analyze the molecular composition of protein complexes and interactions related to major diseases in humans. 

Metagenomics as a Tool for Enzyme Discovery: Hydrolytic Enzymes from Marine-related Metagenomes.- Investigating Bacterial Protein Synthesis Using Systems Biology Approaches.- Biology and Assembly of the Bacterial Envelope.- Comparative Genomics and Evolutionary Modularity of Prokaryotes.- Predicting Functional Interactions among Genes in Prokaryotes by Genomic Context.- Functional Implications for Domain Organization within Prokaryotic Rhomboid Proteases.- Mapping Transcription Regulatory Networks with ChIP-seq and RNA-seq.- Quantitative and Systems-Based Approaches for Deciphering Bacterial Membrane Interactome and Gene Function.- Toward Network Biology in E. coli Cell.- Genetic Interaction Scoring Procedure for Bacterial Species.- Mapping the Protein-Protein Interactome Networks Using Yeast Two-Hybrid Screens.- Biogenesis of Escherichia coli DMSO Reductase: A Network of Participants for Protein Folding and Complex Enzyme Maturation.- Microbial Proteome Profiling and Systems Biology: Applications to Mycobacterium tuberculosis .- Structural Aspects of Bacterial Outer Membrane Protein Assembly.- Substrate Interaction Networks of the Escherichia coli Chaperones: Trigger Factor, DnaK and GroEL.- Genetic, Biochemical, and Structural Analyses of Bacterial Surface Polysaccharides.