High-Quality Genome Reconstruction of Candida albicans CHN1 Using Nanopore and Illumina Sequencing and Hybrid Assembly

por Garg, Shipra, Ranjan, Piyush, Erb-Downward, John R., Huffnagle, Gary B.
Publicado 2021

Draft Genome Sequences of Five Pseudomonas fluorescens Subclade I and II Strains, Isolated from Human Respiratory Samples

por Scales, Brittan S., Erb-Downward, John R., LiPuma, John J., Huffnagle, Gary B.
Publicado 2015

AMAISE: a machine learning approach to index-free sequence enrichment

por Krishnamoorthy, Meera, Ranjan, Piyush, Erb-Downward, John R., Dickson, Robert P., Wiens, Jenna
Publicado 2022

Modulation of Post-Antibiotic Bacterial Community Reassembly and Host Response by Candida albicans

por Erb Downward, John R., Falkowski, Nicole R., Mason, Katie L., Muraglia, Ryan, Huffnagle, Gary B.
Publicado 2013

Complete Genome Sequences of Pseudomonas lundensis Strains M101 and M105, Isolated from 1% Pasteurized Milk

por Ravi, Keerthikka, Erb-Downward, John R., Gammon, Natalie K., Falkowski, Nicole R., Huffnagle, Gary B.
Publicado 2021

Draft Genome Sequences of Seven Pseudomonas fluorescens Subclade III Strains Isolated from Cystic Fibrosis Patients

por Scales, Brittan S., Erb-Downward, John R., Huffnagle, Ian M., LiPuma, John J., Huffnagle, Gary B.
Publicado 2015

Comparative genomics of Pseudomonas fluorescens subclade III strains from human lungs

por Scales, Brittan S., Erb-Downward, John R., Huffnagle, Ian M., LiPuma, John J., Huffnagle, Gary B.
Publicado 2015

Genome Sequences of 12 Pseudomonas lundensis Strains Isolated from the Lungs of Humans

por Scales, Brittan S., Erb-Downward, John R., Falkowski, Nicole R., LiPuma, John J., Huffnagle, Gary B.
Publicado 2018

Gut microbiota relationships to lung function and adult asthma phenotype: a pilot study

por Begley, Lesa, Madapoosi, Siddharth, Opron, Kristopher, Ndum, Ogechukwu, Baptist, Alan, Rysso, Kelly, Erb-Downward, John R, Huang, Yvonne Jean
Publicado 2018

Cell-associated bacteria in the human lung microbiome

por Dickson, Robert P, Erb-Downward, John R, Prescott, Hallie C, Martinez, Fernando J, Curtis, Jeffrey L, Lama, Vibha N, Huffnagle, Gary B
Publicado 2014

Bacterial Topography of the Healthy Human Lower Respiratory Tract

por Dickson, Robert P., Erb-Downward, John R., Freeman, Christine M., McCloskey, Lisa, Falkowski, Nicole R., Huffnagle, Gary B., Curtis, Jeffrey L.
Publicado 2017

Symptom-related sputum microbiota in stable chronic obstructive pulmonary disease

por Diao, Wenqi, Shen, Ning, Du, Yipeng, Erb-Downward, John R, Sun, Xiaoyan, Guo, Chenxia, Ke, Qian, Huffnagle, Gary B, Gyetko, Margaret R, He, Bei
Publicado 2018

Use of Direct Gradient Analysis to Uncover Biological Hypotheses in 16S Survey Data and Beyond

por Erb-Downward, John R., Sadighi Akha, Amir A., Wang, Juan, Shen, Ning, He, Bei, Martinez, Fernando J., Gyetko, Margaret R., Curtis, Jeffrey L., Huffnagle, Gary B.
Publicado 2012

The Systemic Inflammatory Response to Clostridium difficile Infection

por 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.
Publicado 2014

Analysis of the Upper Respiratory Tract Microbiotas as the Source of the Lung and Gastric Microbiotas in Healthy Individuals

por 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.
Publicado 2015

Changes in the Lung Microbiome following Lung Transplantation Include the Emergence of Two Distinct Pseudomonas Species with Distinct Clinical Associations

por 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.
Publicado 2014

SquiggleNet: real-time, direct classification of nanopore signals

por 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.
Publicado 2021

Analysis of the Lung Microbiome in the “Healthy” Smoker and in COPD

por 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.
Publicado 2011

Critical Relevance of Stochastic Effects on Low-Bacterial-Biomass 16S rRNA Gene Analysis

por 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.
Publicado 2020

Rapid identification of pathogens associated with ventilator-associated pneumonia by Nanopore sequencing

por 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
Publicado 2021