A single-cell survey of the small intestinal epithelium

Non-equivalence of Wnt and R-spondin ligands during Lgr5+ intestinal stem-cell self-renewal

(2017) Kelley S. Yan et al.   NATURE

Enteroendocrine Cells: Chemosensors in the Intestinal Epithelium

(2016) Fiona M. Gribble et al.   Annual Review of Physiology

Comprehensive Classification of Retinal Bipolar Neurons by Single-Cell Transcriptomics

(2016) Karthik Shekhar et al.   CELL

Intestinal tuft cells: epithelial sentinels linking luminal cues to the immune system

(2016) F Gerbe et al.   Mucosal Immunology

Intestinal epithelial tuft cells initiate type 2 mucosal immunity to helminth parasites

(2016) François Gerbe et al.   NATURE

Haplotyping germline and cancer genomes with high-throughput linked-read sequencing

(2016) Grace X Y Zheng et al.   NATURE BIOTECHNOLOGY

Tuft cells, taste-chemosensory cells, orchestrate parasite type 2 immunity in the gut

(2016) M. R. Howitt et al.   SCIENCE

Diffusion maps for high-dimensional single-cell analysis of differentiation data

(2015) Laleh Haghverdi et al.   BIOINFORMATICS

Data-Driven Phenotypic Dissection of AML Reveals Progenitor-like Cells that Correlate with Prognosis

(2015) Jacob H. Levine et al.   CELL

Single-cell RNA-seq reveals changes in cell cycle and differentiation programs upon aging of hematopoietic stem cells

(2015) Monika S. Kowalczyk et al.   GENOME RESEARCH

Single-cell messenger RNA sequencing reveals rare intestinal cell types

(2015) Dominic Grün et al.   NATURE

Tuft-cell-derived IL-25 regulates an intestinal ILC2–epithelial response circuit

(2015) Jakob von Moltke et al.   NATURE

Cell types in the mouse cortex and hippocampus revealed by single-cell RNA-seq

(2015) A. Zeisel et al.   SCIENCE

The bile acid TGR5 membrane receptor: From basic research to clinical application

(2014) Henri Duboc et al.   DIGESTIVE AND LIVER DISEASE

Mapping early fate determination in Lgr5+ crypt stem cells using a novel Ki67-RFP allele

(2014) O. Basak et al.   EMBO JOURNAL

Coinfection with an Intestinal Helminth Impairs Host Innate Immunity against Salmonella enterica Serovar Typhimurium and Exacerbates Intestinal Inflammation in Mice

(2014) Libo Su et al.   INFECTION AND IMMUNITY

Comprehensive Gene Expression Profiling of Peyer's Patch M Cells, Villous M-Like Cells, and Intestinal Epithelial Cells

(2014) K. Terahara et al.   JOURNAL OF IMMUNOLOGY

Full-length RNA-seq from single cells using Smart-seq2

(2014) Simone Picelli et al.   Nature Protocols

Clustering by fast search and find of density peaks

(2014) A. Rodriguez et al.   SCIENCE

Co-localisation and secretion of glucagon-like peptide 1 and peptide YY from primary cultured human L cells

(2013) A. M. Habib et al.   DIABETOLOGIA

Microfold (M) cells: important immunosurveillance posts in the intestinal epithelium

(2013) N A Mabbott et al.   Mucosal Immunology

viSNE enables visualization of high dimensional single-cell data and reveals phenotypic heterogeneity of leukemia

(2013) El-ad David Amir et al.   NATURE BIOTECHNOLOGY

Accounting for technical noise in single-cell RNA-seq experiments

(2013) Philip Brennecke et al.   NATURE METHODS

The gut as a sensory organ

(2013) John B. Furness et al.   Nature Reviews Gastroenterology & Hepatology

The sva package for removing batch effects and other unwanted variation in high-throughput experiments

(2012) Jeffrey T. Leek et al.   BIOINFORMATICS

Identification of Novel Genes Selectively Expressed in the Follicle-Associated Epithelium from the Meta-Analysis of Transcriptomics Data from Multiple Mouse Cell and Tissue Populations

(2012) A. Kobayashi et al.   DNA RESEARCH

Peyer's Patch M Cells Derived from Lgr5+ Stem Cells Require SpiB and Are Induced by RankL in Cultured "Miniguts"

(2012) W. de Lau et al.   MOLECULAR AND CELLULAR BIOLOGY

NIH Image to ImageJ: 25 years of image analysis

(2012) Caroline A Schneider et al.   NATURE METHODS

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

(2011) Bo Li et al.   BMC BIOINFORMATICS

GATA Factors Regulate Proliferation, Differentiation, and Gene Expression in Small Intestine of Mature Mice

(2011) Eva Beuling et al.   GASTROENTEROLOGY

Expansion of Paneth Cell Population in Response to Enteric Salmonella enterica Serovar Typhimurium Infection

(2011) Nadine R. Martinez Rodriguez et al.   INFECTION AND IMMUNITY

Epithelial microRNAs regulate gut mucosal immunity via epithelium–T cell crosstalk

(2011) Moshe Biton et al.   NATURE IMMUNOLOGY

AnimalTFDB: a comprehensive animal transcription factor database

(2011) H.-M. Zhang et al.   NUCLEIC ACIDS RESEARCH

Intestinal Epithelial Serum Amyloid A Modulates Bacterial Growth In Vitro and Pro-Inflammatory Responses in Mouse Experimental Colitis

(2010) Erik RM Eckhardt et al.   BMC GASTROENTEROLOGY

Human leucine-rich repeat proteins: a genome-wide bioinformatic categorization and functional analysis in innate immunity

(2010) A. C. Y. Ng et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Gene ontology analysis for RNA-seq: accounting for selection bias

(2010) Matthew D Young et al.   GENOME BIOLOGY

Free fatty acid receptors act as nutrient sensors to regulate energy homeostasis

(2009) Atsuhiko Ichimura et al.   PROSTAGLANDINS & OTHER LIPID MEDIATORS

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Murine intestinal cells expressing Trpm5 are mostly brush cells and express markers of neuronal and inflammatory cells

(2008) C. Bezençon et al.   JOURNAL OF COMPARATIVE NEUROLOGY

The role of peptide YY in appetite regulation and obesity

(2008) Efthimia Karra et al.   JOURNAL OF PHYSIOLOGY-LONDON

Maps of random walks on complex networks reveal community structure

(2008) M. Rosvall et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

GPR119, a novel G protein-coupled receptor target for the treatment of type 2 diabetes and obesity

(2007) H A Overton et al.   BRITISH JOURNAL OF PHARMACOLOGY