Quality control implementation for universal characterization of DNA and RNA viruses in clinical respiratory samples using single metagenomic next-generation sequencing workflow

Messages from the second International Conference on Clinical Metagenomics (ICCMg2)

(2018) Etienne Ruppé et al.   MICROBES AND INFECTION

Validation and Implementation of Clinical Laboratory Improvements Act-Compliant Whole-Genome Sequencing in the Public Health Microbiology Laboratory

(2017) Varvara K. Kozyreva et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Impact of Contaminating DNA in Whole-Genome Amplification Kits Used for Metagenomic Shotgun Sequencing for Infection Diagnosis

(2017) Matthew Thoendel et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Viral Pathogen Detection by Metagenomics and Pan-Viral Group Polymerase Chain Reaction in Children With Pneumonia Lacking Identifiable Etiology

(2017) Robert Schlaberg et al.   JOURNAL OF INFECTIOUS DISEASES

Characterization of the nasopharyngeal viral microbiome from children with community-acquired pneumonia but negative for Luminex xTAG respiratory viral panel assay detection

(2017) Lili Xu et al.   JOURNAL OF MEDICAL VIROLOGY

Optimization and validation of sample preparation for metagenomic sequencing of viruses in clinical samples

(2017) Dagmara W. Lewandowska et al.   Microbiome

Metagenomic sequencing complements routine diagnostics in identifying viral pathogens in lung transplant recipients with unknown etiology of respiratory infection

(2017) Dagmara W. Lewandowska et al.   PLoS One

Metagenomics Study of Viral Pathogens in Undiagnosed Respiratory Specimens and Identification of Human Enteroviruses at a Thailand Hospital

(2016) Y. Zhou et al.   AMERICAN JOURNAL OF TROPICAL MEDICINE AND HYGIENE

Assuring the Quality of Next-Generation Sequencing in Clinical Microbiology and Public Health Laboratories

(2016) Amy S. Gargis et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Unbiased Detection of Respiratory Viruses by Use of RNA Sequencing-Based Metagenomics: a Systematic Comparison to a Commercial PCR Panel

(2016) Erin H. Graf et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Metagenomic Investigation of Plasma in Individuals with ME/CFS Highlights the Importance of Technical Controls to Elucidate Contamination and Batch Effects

(2016) Ruth R. Miller et al.   PLoS One

Evaluation of Unbiased Next-Generation Sequencing of RNA (RNA-seq) as a Diagnostic Method in Influenza Virus-Positive Respiratory Samples

(2015) Nicole Fischer et al.   JOURNAL OF CLINICAL MICROBIOLOGY

The use of next generation sequencing in the diagnosis and typing of respiratory infections

(2015) Fiona Thorburn et al.   JOURNAL OF CLINICAL VIROLOGY

Modular approach to customise sample preparation procedures for viral metagenomics: a reproducible protocol for virome analysis

(2015) Nádia Conceição-Neto et al.   Scientific Reports

Exploring the Potential of Next-Generation Sequencing in Detection of Respiratory Viruses

(2014) S. Prachayangprecha et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Comprehensive Human Virus Screening Using High-Throughput Sequencing with a User-Friendly Representation of Bioinformatics Analysis: a Pilot Study

(2014) Tom J. Petty et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Evaluation of rapid and simple techniques for the enrichment of viruses prior to metagenomic virus discovery

(2013) Richard J. Hall et al.   JOURNAL OF VIROLOGICAL METHODS

Next-generation sequencing technology in clinical virology

(2012) M.R. Capobianchi et al.   CLINICAL MICROBIOLOGY AND INFECTION

Metagenomics and future perspectives in virus discovery

(2012) John L Mokili et al.   Current Opinion in Virology

Amplification Methods Bias Metagenomic Libraries of Uncultured Single-Stranded and Double-Stranded DNA Viruses

(2011) Kyoung-Ho Kim et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Unbiased Parallel Detection of Viral Pathogens in Clinical Samples by Use of a Metagenomic Approach

(2011) J. Yang et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Viruses in the faecal microbiota of monozygotic twins and their mothers

(2010) Alejandro Reyes et al.   NATURE

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS