Braden Tierney

Braden Tierney, PhD

Director of Exposomics and Microbial Data Science

Braden Tierney builds experimental and computational tools that leverage large-scale multi-omic microbiome and exposome data to address fundamental questions regarding mechanisms of the ecosystem-microbe interface while also providing paths to microbial biotechnologies, including human therapeutics and environmental probiotics. Generally, his work employs three approaches: 1) Algorithmic development for evolutionary, gene-level analysis of viral and bacterial communities in the context of host disease and exposure, 2) construction, sequencing, and analyzing of massive-scale biobanks comprising diverse, clinical and environmental samples, and 3) tool development for data-driven culturomics of environmental and human microbes. His work focuses on microbial dynamics in diverse ecosystems, including developing gut microbiome architectures as diagnostic biomarkers for diseases such as colorectal cancer, coronary artery disease, and type 2 diabetes, as well as investigating microbiome-immune interactions in spaceflight, wastewater microbiota as tools for tracking public health, and the effects of dietary shifts on microbiome composition and host immune expression. With industry partners, his teams works to translate these findings into applied settings through randomized clinical trials. Finally, he serve as the Executive Director of the Two Frontiers Project (2FP), which, via expeditions around the globe, uses on sequencing, culturing, and biobanking microbes from extreme environments to solve major problems in public and planetary health, with an emphasis on carbon capture, coral reef health, and sustainable agriculture.

A history of the MetaSUB consortium: Tracking urban microbes around the globe.
Authors: Ryon KA, Tierney BT, Frolova A, Kahles A, Desnues C, Ouzounis C, Gibas C, Bezdan D, Deng Y, He D, Dias-Neto E, Elhaik E, Afshin E, Grills G, Iraola G, Suzuki H, Werner J, Udekwu K, Schriml L, Bhattacharyya M, Oliveira M, Zambrano MM, Hazrin-Chong NH, Osuolale O, Labaj PP, Tiasse P, Rapuri S, Borras S, Pozdniakova S, Shi T, Sezerman U, Rodo X, Sezer ZH, Mason CE.
iScience
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Supervised Machine Learning Enables Geospatial Microbial Provenance.
Authors: Bhattacharya C, Tierney BT, Ryon KA, Bhattacharyya M, Hastings JJA, Basu S, Bhattacharya B, Bagchi D, Mukherjee S, Wang L, Henaff EM, Mason CE.
Genes (Basel)
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Unlocking capacities of genomics for the COVID-19 response and future pandemics.
Authors: Knyazev S, Chhugani K, Sarwal V, Ayyala R, Singh H, Karthikeyan S, Deshpande D, Baykal PI, Comarova Z, Lu A, Porozov Y, Vasylyeva TI, Wertheim JO, Tierney BT, Chiu CY, Sun R, Wu A, Abedalthagafi MS, Pak VM, Nagaraj SH, Smith AL, Skums P, Pasaniuc B, Komissarov A, Mason CE, Bortz E, Lemey P, Kondrashov F, Beerenwinkel N, Lam TT, Wu NC, Zelikovsky A, Knight R, Crandall KA, Mangul S.
Nat Methods
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Systematically assessing microbiome-disease associations identifies drivers of inconsistency in metagenomic research.
Authors: Tierney BT, Tan Y, Yang Z, Shui B, Walker MJ, Kent BM, Kostic AD, Patel CJ.
PLoS Biol
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Using Cartesian Doubt To Build a Sequencing-Based View of Microbiology.
Authors: Tierney BT, Szymanski E, Henriksen JR, Kostic AD, Patel CJ.
mSystems
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Leveraging vibration of effects analysis for robust discovery in observational biomedical data science.
Authors: Tierney BT, Anderson E, Tan Y, Claypool K, Tangirala S, Kostic AD, Manrai AK, Patel CJ.
PLoS Biol
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Reconstruction of ancient microbial genomes from the human gut.
Authors: Wibowo MC, Yang Z, Borry M, Hübner A, Huang KD, Tierney BT, Zimmerman S, Barajas-Olmos F, Contreras-Cubas C, García-Ortiz H, Martínez-Hernández A, Luber JM, Kirstahler P, Blohm T, Smiley FE, Arnold R, Ballal SA, Pamp SJ, Russ J, Maixner F, Rota-Stabelli O, Segata N, Reinhard K, Orozco L, Warinner C, Snow M, LeBlanc S, Kostic AD.
Nature
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Gene-level metagenomic architectures across diseases yield high-resolution microbiome diagnostic indicators.
Authors: Tierney BT, Tan Y, Kostic AD, Patel CJ.
Nat Commun
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A systematic machine learning and data type comparison yields metagenomic predictors of infant age, sex, breastfeeding, antibiotic usage, country of origin, and delivery type.
Authors: Le Goallec A, Tierney BT, Luber JM, Cofer EM, Kostic AD, Patel CJ.
PLoS Comput Biol
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The Landscape of Genetic Content in the Gut and Oral Human Microbiome.
Authors: Tierney BT, Yang Z, Luber JM, Beaudin M, Wibowo MC, Baek C, Mehlenbacher E, Patel CJ, Kostic AD.
Cell Host Microbe
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