Paneth cell defects in Crohn's disease patients promote dysbiosis.

LRRK2 but not ATG16L1 is associated with Paneth cell defect in Japanese Crohn's disease patients. JCI Insight (2017) 0.75

QIIME allows analysis of high-throughput community sequencing data. Nat Methods (2010) 85.34

Human gut microbiome viewed across age and geography. Nature (2012) 19.31

Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms. ISME J (2012) 16.84

Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease. Nature (2012) 16.13

Faecalibacterium prausnitzii is an anti-inflammatory commensal bacterium identified by gut microbiota analysis of Crohn disease patients. Proc Natl Acad Sci U S A (2008) 14.18

The gut microbiota shapes intestinal immune responses during health and disease. Nat Rev Immunol (2009) 13.87

An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea. ISME J (2011) 13.64

Metagenomic biomarker discovery and explanation. Genome Biol (2011) 11.29

Reduced diversity of faecal microbiota in Crohn's disease revealed by a metagenomic approach. Gut (2005) 10.95

A key role for autophagy and the autophagy gene Atg16l1 in mouse and human intestinal Paneth cells. Nature (2008) 10.84

XBP1 links ER stress to intestinal inflammation and confers genetic risk for human inflammatory bowel disease. Cell (2008) 8.43

The treatment-naive microbiome in new-onset Crohn's disease. Cell Host Microbe (2014) 7.43

Virus-plus-susceptibility gene interaction determines Crohn's disease gene Atg16L1 phenotypes in intestine. Cell (2010) 6.79

Regulation of intestinal alpha-defensin activation by the metalloproteinase matrilysin in innate host defense. Science (1999) 6.49

Enteric defensins are essential regulators of intestinal microbial ecology. Nat Immunol (2009) 6.10

Protection against enteric salmonellosis in transgenic mice expressing a human intestinal defensin. Nature (2003) 5.14

Reduced Paneth cell alpha-defensins in ileal Crohn's disease. Proc Natl Acad Sci U S A (2005) 5.05

Immunoglobulin A coating identifies colitogenic bacteria in inflammatory bowel disease. Cell (2014) 4.25

Bayesian community-wide culture-independent microbial source tracking. Nat Methods (2011) 3.88

Pediatric modification of the Montreal classification for inflammatory bowel disease: the Paris classification. Inflamm Bowel Dis (2010) 3.55

The microbiome and butyrate regulate energy metabolism and autophagy in the mammalian colon. Cell Metab (2011) 3.54

Commensal Bacteroides species induce colitis in host-genotype-specific fashion in a mouse model of inflammatory bowel disease. Cell Host Microbe (2011) 3.46

Role of the microbiota in immunity and inflammation. Cell (2014) 3.43

Paneth cells, antimicrobial peptides and maintenance of intestinal homeostasis. Nat Rev Microbiol (2011) 3.21

Twin studies reveal specific imbalances in the mucosa-associated microbiota of patients with ileal Crohn's disease. Inflamm Bowel Dis (2009) 2.85

The microbiome in inflammatory bowel disease: current status and the future ahead. Gastroenterology (2014) 2.73

EMPeror: a tool for visualizing high-throughput microbial community data. Gigascience (2013) 2.54

The commensal microbiota and enteropathogens in the pathogenesis of inflammatory bowel diseases. Gastroenterology (2011) 2.41

Pediatric Crohn disease patients exhibit specific ileal transcriptome and microbiome signature. J Clin Invest (2014) 2.39

Gut-associated bacterial microbiota in paediatric patients with inflammatory bowel disease. Gut (2006) 2.24

Paneth cells as a site of origin for intestinal inflammation. Nature (2013) 2.09

Phylogenetic diversity (PD) and biodiversity conservation: some bioinformatics challenges. Evol Bioinform Online (2007) 2.06

Metagenomics and personalized medicine. Cell (2011) 2.00

World Gastroenterology Organization Practice Guidelines for the diagnosis and management of IBD in 2010. Inflamm Bowel Dis (2010) 1.82

Dysbiotic gut microbiota causes transmissible Crohn's disease-like ileitis independent of failure in antimicrobial defence. Gut (2015) 1.80

Mouse Paneth cell antimicrobial function is independent of Nod2. Gut (2013) 1.69

The diagnostic approach to monogenic very early onset inflammatory bowel disease. Gastroenterology (2014) 1.63

Microbiota of de-novo pediatric IBD: increased Faecalibacterium prausnitzii and reduced bacterial diversity in Crohn's but not in ulcerative colitis. Am J Gastroenterol (2012) 1.54

Supervised classification of microbiota mitigates mislabeling errors. ISME J (2010) 1.54

Intestinal microbiota, microbial translocation, and systemic inflammation in chronic HIV infection. J Infect Dis (2014) 1.47

Inflammatory bowel disease as a model for translating the microbiome. Immunity (2014) 1.39

Microbiota in pediatric inflammatory bowel disease. J Pediatr (2010) 1.34

Diet and the intestinal microbiome: associations, functions, and implications for health and disease. Gastroenterology (2014) 1.33

Inflammation, Antibiotics, and Diet as Environmental Stressors of the Gut Microbiome in Pediatric Crohn's Disease. Cell Host Microbe (2015) 1.29

Dysbiosis and Staphylococcus aureus Colonization Drives Inflammation in Atopic Dermatitis. Immunity (2015) 1.29

Mutations in tetratricopeptide repeat domain 7A result in a severe form of very early onset inflammatory bowel disease. Gastroenterology (2014) 1.15

Genetics of Inflammatory Bowel Diseases. Gastroenterology (2015) 1.11

Genetic variants synthesize to produce paneth cell phenotypes that define subtypes of Crohn's disease. Gastroenterology (2013) 1.08

Iterative rank-order normalization of gene expression microarray data. BMC Bioinformatics (2013) 1.06

Transcriptional co-expression and co-regulation of genes coding for components of the oxidative phosphorylation system. BMC Genomics (2008) 1.05

Genomic ATG16L1 risk allele-restricted Paneth cell ER stress in quiescent Crohn's disease. Gut (2013) 1.02

The microbial basis of inflammatory bowel diseases. J Clin Invest (2014) 1.01

Fecal Microbiota in Pediatric Inflammatory Bowel Disease and Its Relation to Inflammation. Am J Gastroenterol (2015) 0.99

Irgm1-deficient mice exhibit Paneth cell abnormalities and increased susceptibility to acute intestinal inflammation. Am J Physiol Gastrointest Liver Physiol (2013) 0.97

Defective paneth cell-mediated host defense in pediatric ileal Crohn's disease. Am J Gastroenterol (2009) 0.97

Reduced Paneth cell antimicrobial protein levels correlate with activation of the unfolded protein response in the gut of obese individuals. J Pathol (2011) 0.93

Crohn's disease-derived monocytes fail to induce Paneth cell defensins. Proc Natl Acad Sci U S A (2015) 0.92

Type I interferon signalling in the intestinal epithelium affects Paneth cells, microbial ecology and epithelial regeneration. Gut (2014) 0.87

Exposome in IBD: recent insights in environmental factors that influence the onset and course of IBD. Inflamm Bowel Dis (2015) 0.85

The Colonic Microbiome and Epithelial Transcriptome Are Altered in Rats Fed a High-Protein Diet Compared with a Normal-Protein Diet. J Nutr (2016) 0.80

Spatial and temporal stability of paneth cell phenotypes in Crohn's disease: implications for prognostic cellular biomarker development. Inflamm Bowel Dis (2014) 0.80

A prominent glycyl radical enzyme in human gut microbiomes metabolizes trans-4-hydroxy-l-proline. Science (2017) 1.40

A common missense variant in NUDT15 confers susceptibility to thiopurine-induced leukopenia. Nat Genet (2014) 1.38

Urban Transit System Microbial Communities Differ by Surface Type and Interaction with Humans and the Environment. mSystems (2016) 0.95