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Patrick H. Bradley, Ph.D. - Publications

Affiliations: 
2005-2013 Molecular Biology Princeton University, Princeton, NJ 
 2013-2020 GIDB Gladstone Institutes 
 2020- Microbiology Ohio State University, Columbus, Columbus, OH 
Area:
computational biology, microbiome, metabolism, bioinformatics, systems biology
Website:
https://bradleylab.science
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13 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Kananen K, Veseli IA, Quiles Perez CJ, Miller SE, Eren AM, Bradley PH. Adaptive adjustment of significance thresholds produces large gains in microbial gene annotations and metabolic insights. Biorxiv : the Preprint Server For Biology. PMID 39005339 DOI: 10.1101/2024.07.03.601779  0.677
2022 Spanogiannopoulos P, Kyaw TS, Guthrie BGH, Bradley PH, Lee JV, Melamed J, Malig YNA, Lam KN, Gempis D, Sandy M, Kidder W, Van Blarigan EL, Atreya CE, Venook A, Gerona RR, et al. Host and gut bacteria share metabolic pathways for anti-cancer drug metabolism. Nature Microbiology. PMID 36138165 DOI: 10.1038/s41564-022-01226-5  0.522
2020 Bradley PH, Pollard KS. Building a chemical blueprint for human blood. Nature. PMID 33177685 DOI: 10.1038/d41586-020-03122-6  0.391
2019 Bradley PH, Pollard KS. phylogenize: correcting for phylogeny reveals genes associated with microbial distributions. Bioinformatics (Oxford, England). PMID 31588499 DOI: 10.1093/Bioinformatics/Btz722  0.64
2019 Bradley PH, Gibney PA, Botstein D, Troyanskaya OG, Rabinowitz JD. Minor Isozymes Tailor Yeast Metabolism to Carbon Availability. Msystems. 4. PMID 30834327 DOI: 10.1128/mSystems.00170-18  0.739
2018 Bradley PH, Nayfach S, Pollard KS. Phylogeny-corrected identification of microbial gene families relevant to human gut colonization. Plos Computational Biology. 14: e1006242. PMID 30091981 DOI: 10.1371/Journal.Pcbi.1006242  0.642
2017 Bradley PH, Pollard KS. Proteobacteria explain significant functional variability in the human gut microbiome. Microbiome. 5: 36. PMID 28330508 DOI: 10.1186/S40168-017-0244-Z  0.597
2015 Nayfach S, Bradley PH, Wyman SK, Laurent TJ, Williams A, Eisen JA, Pollard KS, Sharpton TJ. Automated and Accurate Estimation of Gene Family Abundance from Shotgun Metagenomes. Plos Computational Biology. 11: e1004573. PMID 26565399 DOI: 10.1371/Journal.Pcbi.1004573  0.727
2013 Caudy AA, Guan Y, Jia Y, Hansen C, DeSevo C, Hayes AP, Agee J, Alvarez-Dominguez JR, Arellano H, Barrett D, Bauerle C, Bisaria N, Bradley PH, Breunig JS, Bush E, et al. A new system for comparative functional genomics of Saccharomyces yeasts. Genetics. 195: 275-87. PMID 23852385 DOI: 10.1534/Genetics.113.152918  0.695
2013 Gibney PA, Hickman MJ, Bradley PH, Matese JC, Botstein D. Phylogenetic portrait of the Saccharomyces cerevisiae functional genome. G3 (Bethesda, Md.). 3: 1335-40. PMID 23749449 DOI: 10.1534/G3.113.006585  0.716
2011 Klosinska MM, Crutchfield CA, Bradley PH, Rabinowitz JD, Broach JR. Yeast cells can access distinct quiescent states. Genes & Development. 25: 336-49. PMID 21289062 DOI: 10.1101/Gad.2011311  0.727
2010 Boer VM, Crutchfield CA, Bradley PH, Botstein D, Rabinowitz JD. Growth-limiting intracellular metabolites in yeast growing under diverse nutrient limitations. Molecular Biology of the Cell. 21: 198-211. PMID 19889834 DOI: 10.1091/Mbc.E09-07-0597  0.714
2009 Bradley PH, Brauer MJ, Rabinowitz JD, Troyanskaya OG. Coordinated concentration changes of transcripts and metabolites in Saccharomyces cerevisiae. Plos Computational Biology. 5: e1000270. PMID 19180179 DOI: 10.1371/Journal.Pcbi.1000270  0.717
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