Analysis of the lung microbiome in the "healthy" smoker and in COPD von Erb-Downward, John R, Thompson, Deborah L, Han, Meilan K, Freeman, Christine M, McCloskey, Lisa, Schmidt, Lindsay A, Young, Vincent B, Toews, Galen B, Curtis, Jeffrey L, Sundaram, Baskaran, Martinez, Fernando J, Huffnagle, Gary B

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Candida albicans and Bacterial Microbiota Interactions in the Cecum during Recolonization following Broad-Spectrum Antibiotic Therapy von MASON, Katie L, ERB DOWNWARD, John R, MASON, Kelly D, FALKOWSKI, Nicole R, EATON, Kathryn A, KAO, John Y, YOUNG, Vincent B, HUFFNAGLE, Gary B

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Towards an ecology of the lung: new conceptual models of pulmonary microbiology and pneumonia pathogenesis von Dickson, Robert P, Dr, Erb-Downward, John R, PhD, Huffnagle, Gary B, PhD

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Interplay between the Gastric Bacterial Microbiota and Candida albicans during Postantibiotic Recolonization and Gastritis von Mason, Katie L, Erb Downward, John R, Falkowski, Nicole R, Young, Vincent B, Kao, John Y, Huffnagle, Gary B

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The Microbiome and the Respiratory Tract von Dickson, Robert P, Erb-Downward, John R, Martinez, Fernando J, Huffnagle, Gary B

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The Lung Microbiota of Healthy Mice Are Highly Variable, Cluster by Environment, and Reflect Variation in Baseline Lung Innate Immunity von Dickson, Robert P, Erb-Downward, John R, Falkowski, Nicole R, Hunter, Ellen M, Ashley, Shanna L, Huffnagle, Gary B

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Bacterial Topography of the Healthy Human Lower Respiratory Tract von Dickson, Robert P, Erb-Downward, John R, Freeman, Christine M, McCloskey, Lisa, Falkowski, Nicole R, Huffnagle, Gary B, Curtis, Jeffrey L

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Lung Microbiota Contribute to Pulmonary Inflammation and Disease Progression in Pulmonary Fibrosis von O'Dwyer, David N, Ashley, Shanna L, Gurczynski, Stephen J, Xia, Meng, Wilke, Carol, Falkowski, Nicole R, Norman, Katy C, Arnold, Kelly B, Huffnagle, Gary B, Salisbury, Margaret L, Han, MeiLan K, Flaherty, Kevin R, White, Eric S, Martinez, Fernando J, Erb-Downward, John R, Murray, Susan, Moore, Bethany B, Dickson, Robert P

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Analysis of the upper respiratory tract microbiotas as the source of the lung and gastric microbiotas in healthy individuals von Bassis, Christine M, Erb-Downward, John R, Dickson, Robert P, Freeman, Christine M, Schmidt, Thomas M, Young, Vincent B, Beck, James M, Curtis, Jeffrey L, Huffnagle, Gary B

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Host Response to the Lung Microbiome in Chronic Obstructive Pulmonary Disease von Sze, Marc A, Dimitriu, Pedro A, Suzuki, Masaru, McDonough, John E, Campbell, Josh D, Brothers, John F, Erb-Downward, John R, Huffnagle, Gary B, Hayashi, Shizu, Elliott, W Mark, Cooper, Joel, Sin, Don D, Lenburg, Marc E, Spira, Avrum, Mohn, William W, Hogg, James C

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Changes in the lung microbiome following lung transplantation include the emergence of two distinct Pseudomonas species with distinct clinical associations von Dickson, Robert P, Erb-Downward, John R, Freeman, Christine M, Walker, Natalie, Scales, Brittan S, Beck, James M, Martinez, Fernando J, Curtis, Jeffrey L, Lama, Vibha N, Huffnagle, Gary B

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SquiggleNet: real-time, direct classification of nanopore signals von Bao, Yuwei, Wadden, Jack, Erb-Downward, John R., Ranjan, Piyush, Zhou, Weichen, McDonald, Torrin L., Mills, Ryan E., Boyle, Alan P., Dickson, Robert P., Blaauw, David, Welch, Joshua D.

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Lung microbiota predict chronic rejection in healthy lung transplant recipients: a prospective cohort study von Combs, Michael P, Wheeler, David S, Luth, Jenna E, Falkowski, Nicole R, Walker, Natalie M, Erb-Downward, John R, Lama, Vibha N, Dickson, Robert P

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Modulation of Post-Antibiotic Bacterial Community Reassembly and Host Response by Candida albicans von Erb Downward, John R., Falkowski, Nicole R., Mason, Katie L., Muraglia, Ryan, Huffnagle, Gary B.

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Bacterial Dissemination to the Brain in Sepsis von Singer, Benjamin H, Dickson, Robert P, Denstaedt, Scott J, Newstead, Michael W, Kim, Kwi, Falkowski, Nicole R, Erb-Downward, John R, Schmidt, Thomas M, Huffnagle, Gary B, Standiford, Theodore J

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role of laccase in prostaglandin production by Cryptococcus neoformans von Erb-Downward, John R, Noggle, Rachael M, Williamson, Peter R, Huffnagle, Gary B

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The systemic inflammatory response to Clostridium difficile infection von Rao, Krishna, Erb-Downward, John R, Walk, Seth T, Micic, Dejan, Falkowski, Nicole, Santhosh, Kavitha, Mogle, Jill A, Ring, Cathrin, Young, Vincent B, Huffnagle, Gary B, Aronoff, David M

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Rapid identification of pathogens associated with ventilator-associated pneumonia by Nanopore sequencing von Wu, Nan, Ranjan, Piyush, Tao, Changyu, Liu, Chao, Yang, Ence, He, Bei, Erb-Downward, John R., Bo, Shining, Zheng, Jiajia, Guo, Chenxia, Liu, Beibei, Sun, Lina, Yan, Wei, Wang, Meng, Wang, Wenting, Wen, Jianing, Yang, Ping, Yang, Lin, Tian, Qiaoshan, Dickson, Robert P., Shen, Ning

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Critical Relevance of Stochastic Effects on Low-Bacterial-Biomass 16S rRNA Gene Analysis von Erb-Downward, John R., Falkowski, Nicole R., D'Souza, Jennifer C., McCloskey, Lisa M., McDonald, Roderick A., Brown, Christopher A., Shedden, Kerby, Dickson, Robert P., Freeman, Christine M., Stringer, Kathleen A., Foxman, Betsy, Huffnagle, Gary B., Curtis, Jeffrey L., Adar, Sara D.

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Gut microbiota relationships to lung function and adult asthma phenotype: a pilot study von Begley, Lesa, Madapoosi, Siddharth, Opron, Kristopher, Ndum, Ogechukwu, Baptist, Alan, Rysso, Kelly, Erb-Downward, John R, Huang, Yvonne Jean

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