Imbalance of bacteriome profiles within the Finnish Diabetes Prediction and Prevention study: Parallel use of 16S profiling and virome sequencing in stool samples from children with islet autoimmunity and matched controls

Dietary factors in the development of type 1 diabetes

(2016) Suvi M Virtanen   PEDIATRIC DIABETES

Association of Early Exposure of Probiotics and Islet Autoimmunity in the TEDDY Study

(2016) Ulla Uusitalo et al.   JAMA Pediatrics

Scientific evidence for health effects attributed to the consumption of probiotics and prebiotics: an update for current perspectives and future challenges

(2015) Rafael Chacon Ruiz Martinez et al.   BRITISH JOURNAL OF NUTRITION

The Dynamics of the Human Infant Gut Microbiome in Development and in Progression toward Type 1 Diabetes

(2015) Aleksandar D. Kostic et al.   Cell Host & Microbe

From cultured to uncultured genome sequences: metagenomics and modeling microbial ecosystems

(2015) Daniel R. Garza et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Gut Virome Sequencing in Children With Early Islet Autoimmunity: Figure 1

(2015) Lenka Kramná et al.   DIABETES CARE

A model for the role of gut bacteria in the development of autoimmunity for type 1 diabetes

(2015) Austin G. Davis-Richardson et al.   DIABETOLOGIA

Metagenomic Analysis of Crohnʼs Disease Patients Identifies Changes in the Virome and Microbiome Related to Disease Status and Therapy, and Detects Potential Interactions and Biomarkers

(2015) Vicente Pérez-Brocal et al.   INFLAMMATORY BOWEL DISEASES

Role of the gastrointestinal ecosystem in the development of type 1 diabetes

(2015) Joseph G Daft et al.   PEDIATRIC DIABETES

Collection media and delayed freezing effects on microbial composition of human stool

(2015) Roberto Flores et al.   Microbiome

Compromised Gut Microbiota Networks in Children With Anti-Islet Cell Autoimmunity

(2014) David Endesfelder et al.   DIABETES

Aberrant gut microbiota composition at the onset of type 1 diabetes in young children

(2014) Marcus C. de Goffau et al.   DIABETOLOGIA

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

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

Fecal microbiota imbalance in Mexican children with type 1 diabetes

(2014) María Esther Mejía-León et al.   Scientific Reports

Waste Not, Want Not: Why Rarefying Microbiome Data Is Inadmissible

(2014) Paul J. McMurdie et al.   PLoS Computational Biology

The methylome of the gut microbiome: disparate Dam methylation patterns in intestinal Bacteroides dorei

(2014) Michael T. Leonard et al.   Frontiers in Microbiology

Bacteroides dorei dominates gut microbiome prior to autoimmunity in Finnish children at high risk for type 1 diabetes

(2014) Austin G. Davis-Richardson et al.   Frontiers in Microbiology

Antibodies to Lactobacilli and Bifidobacteria in Young Children with Different Propensity to Develop Islet Autoimmunity

(2014) Ija Talja et al.   Journal of Immunology Research

Development of a Dual-Index Sequencing Strategy and Curation Pipeline for Analyzing Amplicon Sequence Data on the MiSeq Illumina Sequencing Platform

(2013) James J. Kozich et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Gut microbiota in children with type 1 diabetes differs from that in healthy children: a case-control study

(2013) Mora Murri et al.   BMC Medicine

PATRIC, the bacterial bioinformatics database and analysis resource

(2013) Alice R. Wattam et al.   NUCLEIC ACIDS RESEARCH

phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data

(2013) Paul J. McMurdie et al.   PLoS One

Fecal Microbiota Composition Differs Between Children With  -Cell Autoimmunity and Those Without

(2012) M. C. de Goffau et al.   DIABETES

Breast-Feeding and Childhood-Onset Type 1 Diabetes: A pooled analysis of individual participant data from 43 observational studies

(2012) C. R. Cardwell et al.   DIABETES CARE

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

Characterization of the Fecal Microbiota Using High-Throughput Sequencing Reveals a Stable Microbial Community during Storage

(2012) Ian M. Carroll et al.   PLoS One

Double indexing overcomes inaccuracies in multiplex sequencing on the Illumina platform

(2011) Martin Kircher et al.   NUCLEIC ACIDS RESEARCH

Gut Microbiome Metagenomics Analysis Suggests a Functional Model for the Development of Autoimmunity for Type 1 Diabetes

(2011) Christopher T. Brown et al.   PLoS One

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Burkholderia cenocepacia in cystic fibrosis: epidemiology and molecular mechanisms of virulence

(2010) P. Drevinek et al.   CLINICAL MICROBIOLOGY AND INFECTION

Toward defining the autoimmune microbiome for type 1 diabetes

(2010) Adriana Giongo et al.   ISME Journal

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

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

Isolation of Bifidobacteria from Breast Milk and Assessment of the Bifidobacterial Population by PCR-Denaturing Gradient Gel Electrophoresis and Quantitative Real-Time PCR

(2008) R. Martin et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Nasal insulin to prevent type 1 diabetes in children with HLA genotypes and autoantibodies conferring increased risk of disease: a double-blind, randomised controlled trial

(2008) Kirsti Näntö-Salonen et al.   LANCET