Patrick H. Bradley, Ph.D.

2005-2013 Molecular Biology Princeton University, Princeton, NJ 
 2013- Convergence Zone Gladstone Institutes 
computational biology, microbiome, metabolism, bioinformatics, systems biology
"Patrick H Bradley"


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Joshua D. Rabinowitz grad student 2005-2012 Princeton (Chemistry Tree)
 (Thesis: Inferring Metabolic Regulation from High-Throughput Data)
Olga G. Troyanskaya grad student 2005-2012 Princeton
 (Thesis: Inferring Metabolic Regulation from High-Throughput Data)
Katherine S. Pollard post-doc 2013- Gladstone Institute (UCSF) (Evolution Tree)


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James Riley Broach collaborator 2010-2011 Princeton (PombeTree)
David Botstein collaborator 2010-2013 Princeton
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Spanogiannopoulos P, Kyaw TS, Guthrie BGH, et al. (2022) Host and gut bacteria share metabolic pathways for anti-cancer drug metabolism. Nature Microbiology
Bradley PH, Pollard KS. (2020) Building a chemical blueprint for human blood. Nature
Bradley PH, Pollard KS. (2019) phylogenize: correcting for phylogeny reveals genes associated with microbial distributions. Bioinformatics (Oxford, England)
Bradley PH, Gibney PA, Botstein D, et al. (2019) Minor Isozymes Tailor Yeast Metabolism to Carbon Availability. Msystems. 4
Bradley PH, Nayfach S, Pollard KS. (2018) Phylogeny-corrected identification of microbial gene families relevant to human gut colonization. Plos Computational Biology. 14: e1006242
Bradley PH, Pollard KS. (2017) Proteobacteria explain significant functional variability in the human gut microbiome. Microbiome. 5: 36
Nayfach S, Bradley PH, Wyman SK, et al. (2015) Automated and Accurate Estimation of Gene Family Abundance from Shotgun Metagenomes. Plos Computational Biology. 11: e1004573
Caudy AA, Guan Y, Jia Y, et al. (2013) A new system for comparative functional genomics of Saccharomyces yeasts. Genetics. 195: 275-87
Gibney PA, Hickman MJ, Bradley PH, et al. (2013) Phylogenetic portrait of the Saccharomyces cerevisiae functional genome. G3 (Bethesda, Md.). 3: 1335-40
Klosinska MM, Crutchfield CA, Bradley PH, et al. (2011) Yeast cells can access distinct quiescent states. Genes & Development. 25: 336-49
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