Reducing inherent biases introduced during DNA viral metagenome analyses of municipal wastewater

Evaluation of methods to purify virus-like particles for metagenomic sequencing of intestinal viromes

(2015) Manuel Kleiner et al.   BMC GENOMICS

Comparing viral metagenomics methods using a highly multiplexed human viral pathogens reagent

(2015) Linlin Li et al.   JOURNAL OF VIROLOGICAL METHODS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Metavir 2: new tools for viral metagenome comparison and assembled virome analysis

(2014) Simon Roux et al.   BMC BIOINFORMATICS

Comparison of different assembly and annotation tools on analysis of simulated viral metagenomic communities in the gut

(2014) Jorge F Vázquez-Castellanos et al.   BMC GENOMICS

DNA/RNA Preparation for Molecular Detection

(2014) S. A. Thatcher   CLINICAL CHEMISTRY

An Improved Method for Including Upper Size Range Plasmids in Metamobilomes

(2014) Anders Norman et al.   PLoS One

A highly abundant bacteriophage discovered in the unknown sequences of human faecal metagenomes

(2014) Bas E. Dutilh et al.   Nature Communications

Metagenomic Evaluation of the Highly Abundant Human Gut Bacteriophage CrAssphage for Source Tracking of Human Fecal Pollution

(2014) Elyse Stachler et al.   Environmental Science & Technology Letters

Identification of Viral Pathogen Diversity in Sewage Sludge by Metagenome Analysis

(2013) Kyle Bibby et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Giant Viruses of Amoebae as Potential Human Pathogens

(2013) Philippe Colson et al.   INTERVIROLOGY

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

Development and Evaluation of EPA Method 1615 for Detection of Enterovirus and Norovirus in Water

(2012) Jennifer L. Cashdollar et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

A field guide to eukaryotic circular single-stranded DNA viruses: insights gained from metagenomics

(2012) Karyna Rosario et al.   ARCHIVES OF VIROLOGY

Evaluation of methods to concentrate and purify ocean virus communities through comparative, replicated metagenomics

(2012) Bonnie L. Hurwitz et al.   ENVIRONMENTAL MICROBIOLOGY

Interactions between Rotavirus and Suwannee River Organic Matter: Aggregation, Deposition, and Adhesion Force Measurement

(2012) Leonardo Gutierrez et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Going viral: next-generation sequencing applied to phage populations in the human gut

(2012) Alejandro Reyes et al.   NATURE REVIEWS MICROBIOLOGY

Evaluation of a Transposase Protocol for Rapid Generation of Shotgun High-Throughput Sequencing Libraries from Nanogram Quantities of DNA

(2011) Rachel Marine et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Raw Sewage Harbors Diverse Viral Populations

(2011) P. G. Cantalupo et al.   mBio

Exploring the viral world through metagenomics

(2011) Karyna Rosario et al.   Current Opinion in Virology

Census of the Viral Metagenome within an Activated Sludge Microbial Assemblage

(2010) L. C. Parsley et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Viruses in the faecal microbiota of monozygotic twins and their mothers

(2010) Alejandro Reyes et al.   NATURE

Multiple displacement amplification compromises quantitative analysis of metagenomes

(2010) Suzan Yilmaz et al.   NATURE METHODS

Quantification of Human Polyomaviruses JC Virus and BK Virus by TaqMan Quantitative PCR and Comparison to Other Water Quality Indicators in Water and Fecal Samples

(2009) S. M. McQuaig et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Metagenomic signatures of 86 microbial and viral metagenomes

(2009) Dana Willner et al.   ENVIRONMENTAL MICROBIOLOGY

Metagenomic analysis of viruses in reclaimed water

(2009) Karyna Rosario et al.   ENVIRONMENTAL MICROBIOLOGY

Amplification of Uncultured Single-Stranded DNA Viruses from Rice Paddy Soil

(2008) K.-H. Kim et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The metagenomics RAST server – a public resource for the automatic phylogenetic and functional analysis of metagenomes

(2008) F Meyer et al.   BMC BIOINFORMATICS

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

(2008) D. R. Zerbino et al.   GENOME RESEARCH