Single-Molecule Long-Read 16S Sequencing To Characterize the Lung Microbiome from Mechanically Ventilated Patients with Suspected Pneumonia

Does sputum culture affect the management and/or outcome of community-acquired pneumonia?

(2018) M.R. Shariatzadeh et al.   EASTERN MEDITERRANEAN HEALTH JOURNAL

Antimicrobial stewardship - can we afford to do without it?

(2015) Anna Aryee et al.   BRITISH JOURNAL OF CLINICAL PHARMACOLOGY

Clinical PathoScope: rapid alignment and filtration for accurate pathogen identification in clinical samples using unassembled sequencing data

(2014) Allyson L Byrd et al.   BMC BIOINFORMATICS

Actionable Diagnosis of Neuroleptospirosis by Next-Generation Sequencing

(2014) Michael R. Wilson et al.   NEW ENGLAND JOURNAL OF MEDICINE

Lung Microbiota and Bacterial Abundance in Patients with Bronchiectasis when Clinically Stable and during Exacerbation

(2013) Michael M. Tunney et al.   AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE

Comparison of the Respiratory Microbiome in Healthy Nonsmokers and Smokers

(2013) Alison Morris et al.   AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE

Delivering antibiotics to the lungs of patients with ventilator-associated pneumonia: an update

(2013) Charles-Edouard Luyt et al.   Expert Review of Anti-Infective Therapy

Pathoscope: Species identification and strain attribution with unassembled sequencing data

(2013) O. E. Francis et al.   GENOME RESEARCH

NET balancing: a problem in inflammatory lung diseases

(2013) Olivia Z. Cheng et al.   Frontiers in Immunology

Microbial phylogenetic profiling with the Pacific Biosciences sequencing platform

(2013) Erin B Fichot et al.   Microbiome

The Lung Tissue Microbiome in Chronic Obstructive Pulmonary Disease

(2012) Marc A. Sze et al.   AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE

Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data

(2012) M. Kearse et al.   BIOINFORMATICS

Detection of diverse aquatic microbes in blood and organs of drowning victims: First metagenomic approach using high-throughput 454-pyrosequencing

(2012) Eiji Kakizaki et al.   FORENSIC SCIENCE INTERNATIONAL

Microbiome Diversity in the Bronchial Tracts of Patients with Chronic Obstructive Pulmonary Disease

(2012) R. Cabrera-Rubio et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

The Lung Microbiome in Moderate and Severe Chronic Obstructive Pulmonary Disease

(2012) Alexa A. Pragman et al.   PLoS One

The microbiome of the lung

(2012) James M. Beck et al.   Translational Research

Topographical Continuity of Bacterial Populations in the Healthy Human Respiratory Tract

(2011) Emily S. Charlson et al.   AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE

DECIPHER, a Search-Based Approach to Chimera Identification for 16S rRNA Sequences

(2011) Erik S. Wright et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Target Region Selection Is a Critical Determinant of Community Fingerprints Generated by 16S Pyrosequencing

(2011) Purnima S. Kumar et al.   PLoS One

Release LTPs104 of the All-Species Living Tree

(2011) Raúl Munoz et al.   SYSTEMATIC AND APPLIED MICROBIOLOGY

The emerging relationship between the airway microbiota and chronic respiratory disease: clinical implications

(2011) Yvonne J Huang et al.   Expert Review of Respiratory Medicine

A Higher Significance of Anaerobes

(2010) Toshinori Kawanami et al.   CHEST

Analysis of the Bacterial Communities Present in Lungs of Patients with Cystic Fibrosis from American and British Centers

(2010) F. A. Stressmann et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Comparison of two next-generation sequencing technologies for resolving highly complex microbiota composition using tandem variable 16S rRNA gene regions

(2010) Marcus J. Claesson et al.   NUCLEIC ACIDS RESEARCH

A Persistent and Diverse Airway Microbiota Present during Chronic Obstructive Pulmonary Disease Exacerbations

(2010) Yvonne J. Huang et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

Tracheal aspirate Gram stain has limited sensitivity and specificity for detecting Staphylococcus aureus

(2010) Sodienye TETENTA et al.   RESPIROLOGY

Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

(2009) P. D. Schloss et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Etiology of Community‐Acquired Pneumonia: Increased Microbiological Yield with New Diagnostic Methods

(2009) Niclas Johansson et al.   CLINICAL INFECTIOUS DISEASES

Critical Evaluation of Two Primers Commonly Used for Amplification of Bacterial 16S rRNA Genes

(2008) J. A. Frank et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The Ribosomal Database Project: improved alignments and new tools for rRNA analysis

(2008) J. R. Cole et al.   NUCLEIC ACIDS RESEARCH

The All-Species Living Tree project: A 16S rRNA-based phylogenetic tree of all sequenced type strains

(2008) Pablo Yarza et al.   SYSTEMATIC AND APPLIED MICROBIOLOGY