Nevan Krogan, PhD
Senior Investigator, Gladstone Institute of Data Science and Biotechnology

Other Professional Titles

Professor, Cellular and Molecular Pharmacology, California Institute for Quantitative Biomedical Research, UCSF

Phone

(415) 734-2980

Fax

(415) 514-9736

Assistant

Lauren Weiser
(415) 734-4809
Nikki Treacy
(415) 476-6109

Areas of Investigation

The research in our laboratory focuses on the development of tools that allows for the generation, analysis and visualization of large-scale, quantitative genetic and physical interaction maps with the ultimate goal of further understanding cell physiology. Our group is presently interrogating a variety of biological processes in different eukaryotic (e.g. yeast, mouse, human) and prokaryotic (e.g. E. coli, B. subtilis, S. typhi) organisms. We are also interested in how these networks change under different conditions in a given organism as well as across different species. Furthermore, our group is also using these global, unbiased systems approaches to understand how HIV (and other pathogens) rewires the host’s cellular machinery during the course of infection. Ultimately, we predict that common host pathways and complexes will be targeted by multiple pathogens, and these will serve as better therapeutic targets for future studies. We recently used a systematic affinity tag/purification-mass spectrometry (AP-MS) approach to purify all 18 HIV-1 polyproteins and processed proteins from two different cell types (HEK293 and Jurkat) and characterized the HIV–human complexes by mass spectrometry. Using a novel scoring algorithm we developed that quantitatively reports on mass spectrometry-derived protein-protein interactions, termed MiST (mass spectrometry interaction statistics), we derived a set of 497 HIV-human protein-protein interactions involving 435 distinct human proteins. This work led to a number of mechanistic insights about the function of specific HIV proteins during the course of HIV infection. We are using other systems approaches to gain a deeper understanding of the HIV infection process. These include analyzing global changes in post-translational modifications in the HIV-infected host proteome, performing genetic interaction analyses with RNAi and mutant viruses. Finally, we are using these platforms to interrogate other pathogenic organisms and how they infect their host, including hepatitis C, influenza and West Nile virus.

Lab Focus

How do biological networks change under different stress conditions in a given organism and how do they evolve across different species?
What global changes can be seen in post-translational modification in the host proteome infected by HIV?
What genetic interactions exist between RNAi and mutant viruses?
Will hepatitis C, influenza and West Nile virus protein interactions with human proteins reflect similar or differing methods of host infection when compared to HIV?

Achievements

Developed computational and experimental tools for the functional interrogation of different biological systems using protein-protein and genetic interaction mapping approaches
Deepened our understanding of how HIV proteins function during the course of infection by identifying several hundred host-pathogen protein interactions, most of which had not been previously identified.
Uncovered a new subunit of the Vif/Cul5 protein complex, called CBFß, that targets the APOBEC3 family of enzymes, restriction factors that inhibit HIV infection, for ubiquitination and degradation.

Professional titles

Professor, Cellular and Molecular Pharmacology, California Institute for Quantitative Biomedical Research, UCSF

Education

1997
BS
  • University of Regina, Canada
2014
PhD
  • University of Toronto, Canada

Honors and Awards

2014 Top 40 Under 40, Cell
2012 Alumni Crowning Achievement Award, University of Regina
2009 Searle Scholar, Searle Foundation
2009 Keck Distinguished Young Scholar, W.M. Keck Foundation
2005 L.W. Macpherson Microbiology Award
2004 Hannah Farkas-Himsley and Alexander Memorial Award
2001 Canadian Institute of Health Research (CIHR) Doctoral Fellowship
1999 PGS-B Award, Natural Sciences and Engineering Research Council
1997 Society of Chemical Industry Merit Award
1995 Canadian Cancer Society Studentship