Meta-SourceTracker: application of Bayesian source tracking to shotgun metagenomics

Co-occurrence of early gut colonization in neonatal piglets with microbiota in the maternal and surrounding delivery environments

(2018) Xue Chen et al.   ANAEROBE

OUP accepted manuscript

(2018)   BIOINFORMATICS

Multi-omics approach to elucidate the gut microbiota activity: Metaproteomics and metagenomics connection

(2018) Maria Guirro et al.   ELECTROPHORESIS

Application of SourceTracker for Accurate Identification of Fecal Pollution in Recreational Freshwater: A Double-Blinded Study

(2018) Christopher Staley et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Tracking the Sources of Antibiotic Resistance Genes in an Urban Stream during Wet Weather using Shotgun Metagenomic Analyses

(2018) Darshan Baral et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Aerobic composting reduces antibiotic resistance genes in cattle manure and the resistome dissemination in agricultural soils

(2018) Min Gou et al.   SCIENCE OF THE TOTAL ENVIRONMENT

Assessing the origin of bacteria in tap water and distribution system in an unchlorinated drinking water system by SourceTracker using microbial community fingerprints

(2018) Gang Liu et al.   WATER RESEARCH

Creating a 3D microbial and chemical snapshot of a human habitat

(2018) Clifford A. Kapono et al.   Scientific Reports

Tracking antibiotic resistance gene pollution from different sources using machine-learning classification

(2018) Li-Guan Li et al.   Microbiome

Conducting metagenomic studies in microbiology and clinical research

(2018) Tiphaine C. Martin et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Succession and persistence of microbial communities and antimicrobial resistance genes associated with International Space Station environmental surfaces

(2018) Nitin Kumar Singh et al.   Microbiome

Next generation microbiological risk assessment meta-omics: The next need for integration

(2017) Luca Cocolin et al.   INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY

Shotgun metagenomics, from sampling to analysis

(2017) Christopher Quince et al.   NATURE BIOTECHNOLOGY

Rapid assemblage of diverse environmental fungal communities on public restroom floors

(2016) J. Fouquier et al.   INDOOR AIR

Into the deep: Evaluation of SourceTracker for assessment of faecal contamination of coastal waters

(2016) Rebekah Henry et al.   WATER RESEARCH

Fast and sensitive taxonomic classification for metagenomics with Kaiju

(2016) Peter Menzel et al.   Nature Communications

Microbial Community Patterns Associated with Automated Teller Machine Keypads in New York City

(2016) Holly M. Bik et al.   mSphere

The Oral and Skin Microbiomes of Captive Komodo Dragons Are Significantly Shared with Their Habitat

(2016) Embriette R. Hyde et al.   mSystems

Forensic analysis of the microbiome of phones and shoes

(2015) Simon Lax et al.   Microbiome

Combining metagenomics, metatranscriptomics and viromics to explore novel microbial interactions: towards a systems-level understanding of human microbiome

(2015) Shirley Bikel et al.   Computational and Structural Biotechnology Journal

Ecological Succession and Viability of Human-Associated Microbiota on Restroom Surfaces

(2014) Sean M. Gibbons et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Ten years of next-generation sequencing technology

(2014) Erwin L. van Dijk et al.   TRENDS IN GENETICS

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

Use of Bacteroidales Microbial Source Tracking To Monitor Fecal Contamination in Fresh Produce Production

(2013) Kruti Ravaliya et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

A Microbial Signature Approach to Identify Fecal Pollution in the Waters Off an Urbanized Coast of Lake Michigan

(2013) Ryan J. Newton et al.   MICROBIAL ECOLOGY

Bacterial Diversity in Two Neonatal Intensive Care Units (NICUs)

(2013) Krissi M. Hewitt et al.   PLoS One

The NumPy Array: A Structure for Efficient Numerical Computation

(2011) Stéfan van der Walt et al.   COMPUTING IN SCIENCE & ENGINEERING

Bayesian community-wide culture-independent microbial source tracking

(2011) Dan Knights et al.   NATURE METHODS

Microbial Biogeography of Public Restroom Surfaces

(2011) Gilberto E. Flores et al.   PLoS One