Single-cell atlas of hepatic T cells reveals expansion of liver-resident naive-like CD4+ T cells in primary sclerosing cholangitis

Monocytes as potential mediators of pathogen‐induced Th17 differentiation in patients with primary sclerosing cholangitis (PSC)

(2020) Lilly Kristin Kunzmann et al.   HEPATOLOGY

Single-cell RNA sequencing reveals the heterogeneity of liver-resident immune cells in human

(2020) Juanjuan Zhao et al.   Cell Discovery

Single-cell atlas of colonic CD8+ T cells in ulcerative colitis

(2020) Daniele Corridoni et al.   NATURE MEDICINE

ATAC-seq footprinting unravels kinetics of transcription factor binding during zygotic genome activation

(2020) Mette Bentsen et al.   Nature Communications

Gut pathobionts underlie intestinal barrier dysfunction and liver T helper 17 cell immune response in primary sclerosing cholangitis

(2019) Nobuhiro Nakamoto et al.   Nature Microbiology

Characterization of cell fate probabilities in single-cell data with Palantir

(2019) Manu Setty et al.   NATURE BIOTECHNOLOGY

CCL21-expression and accumulation of CCR7+ NK cells in livers of patients with primary sclerosing cholangitis

(2019) Annika E. Langeneckert et al.   EUROPEAN JOURNAL OF IMMUNOLOGY

Scrublet: Computational Identification of Cell Doublets in Single-Cell Transcriptomic Data

(2019) Samuel L. Wolock et al.   Cell Systems

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

Alterations of the bile microbiome in primary sclerosing cholangitis

(2019) Timur Liwinski et al.   GUT

A human liver cell atlas reveals heterogeneity and epithelial progenitors

(2019) Nadim Aizarani et al.   NATURE

Resolving the fibrotic niche of human liver cirrhosis at single-cell level

(2019) P. Ramachandran et al.   NATURE

Fast, sensitive and accurate integration of single-cell data with Harmony

(2019) Ilya Korsunsky et al.   NATURE METHODS

Single-cell transcriptomics of human T cells reveals tissue and activation signatures in health and disease

(2019) Peter A. Szabo et al.   Nature Communications

Slingshot: cell lineage and pseudotime inference for single-cell transcriptomics

(2018) Kelly Street et al.   BMC GENOMICS

An R package for climate forecast verification

(2018) Nicolau Manubens et al.   ENVIRONMENTAL MODELLING & SOFTWARE

Human T Cell Development, Localization, and Function throughout Life

(2018) Brahma V. Kumar et al.   IMMUNITY

c-Maf in CD4+ T cells: it’s all about context

(2018) W. Nicholas Haining et al.   NATURE IMMUNOLOGY

ORAI1, STIM1/2, and RYR1 shape subsecond Ca2+ microdomains upon T cell activation

(2018) Björn-Philipp Diercks et al.   Science Signaling

Primary sclerosing cholangitis – a comprehensive review

(2017) Tom H. Karlsen et al.   JOURNAL OF HEPATOLOGY

ranger: A Fast Implementation of Random Forests for High Dimensional Data in C++ and R

(2017) Marvin N. Wright et al.   Journal of Statistical Software

Simultaneous epitope and transcriptome measurement in single cells

(2017) Marlon Stoeckius et al.   NATURE METHODS

Human Tissue-Resident Memory T Cells Are Defined by Core Transcriptional and Functional Signatures in Lymphoid and Mucosal Sites

(2017) Brahma V. Kumar et al.   Cell Reports

Faecal microbiota profiles as diagnostic biomarkers in primary sclerosing cholangitis

(2016) Malte Christoph Rühlemann et al.   GUT

The gut-adherent microbiota of PSC–IBD is distinct to that of IBD

(2016) Mohammed Nabil Quraishi et al.   GUT

Primary sclerosing cholangitis is characterised by intestinal dysbiosis independent from IBD

(2016) João Sabino et al.   GUT

The gut microbial profile in patients with primary sclerosing cholangitis is distinct from patients with ulcerative colitis without biliary disease and healthy controls

(2016) Martin Kummen et al.   GUT

Gut microbiome and liver diseases

(2016) Herbert Tilg et al.   GUT

Epigenomic Profiling of Human CD4 + T Cells Supports a Linear Differentiation Model and Highlights Molecular Regulators of Memory Development

(2016) Pawel Durek et al.   IMMUNITY

Arid5a regulates naive CD4+T cell fate through selective stabilization of Stat3 mRNA

(2016) Kazuya Masuda et al.   JOURNAL OF EXPERIMENTAL MEDICINE

CD4 + T cells from patients with primary sclerosing cholangitis exhibit reduced apoptosis and down-regulation of proapoptotic Bim in peripheral blood

(2016) Tanja Schoknecht et al.   JOURNAL OF LEUKOCYTE BIOLOGY

Genome-wide association study of primary sclerosing cholangitis identifies new risk loci and quantifies the genetic relationship with inflammatory bowel disease

(2016) Sun-Gou Ji et al.   NATURE GENETICS

Primary Sclerosing Cholangitis

(2016) Konstantinos N. Lazaridis et al.   NEW ENGLAND JOURNAL OF MEDICINE

Building Predictive Models inRUsing thecaretPackage

(2015) Max Kuhn   Journal of Statistical Software

Feature Selection with theBorutaPackage

(2015) Miron B. Kursa et al.   Journal of Statistical Software

Loss of CD28 Expression by Liver-Infiltrating T Cells Contributes to Pathogenesis of Primary Sclerosing Cholangitis

(2014) Evaggelia Liaskou et al.   GASTROENTEROLOGY

Tissue-Resident Memory T Cells

(2014) Jason M. Schenkel et al.   IMMUNITY

Reduced FOXP3+ regulatory T cells in patients with primary sclerosing cholangitis are associated with IL2RA gene polymorphisms

(2014) Marcial Sebode et al.   JOURNAL OF HEPATOLOGY

STAT3 Activation in Th17 and Th22 Cells Controls IL-22–Mediated Epithelial Host Defense during Infectious Colitis

(2014) Ingo Backert et al.   JOURNAL OF IMMUNOLOGY

Review article: controversies in the management of primary biliary cirrhosis and primary sclerosing cholangitis

(2013) T. H. Karlsen et al.   ALIMENTARY PHARMACOLOGY & THERAPEUTICS

The who's who of T-cell differentiation: Human memory T-cell subsets

(2013) Yolanda D. Mahnke et al.   EUROPEAN JOURNAL OF IMMUNOLOGY

Increased T helper type 17 response to pathogen stimulation in patients with primary sclerosing cholangitis

(2013) Janosch Katt et al.   HEPATOLOGY

Epigenetic and transcriptional signatures of stable versus plastic differentiation of proinflammatory γδ T cell subsets

(2013) Nina Schmolka et al.   NATURE IMMUNOLOGY

Hepatitis C virus promotes t-helper (Th)17 responses through thymic stromal lymphopoietin production by infected hepatocytes

(2012) Hai-Chon Lee et al.   HEPATOLOGY

The TCF-1 and LEF-1 Transcription Factors Have Cooperative and Opposing Roles in T Cell Development and Malignancy

(2012) Shuyang Yu et al.   IMMUNITY

Epidemiology of primary sclerosing cholangitis and primary biliary cirrhosis: A systematic review

(2012) Kirsten Boonstra et al.   JOURNAL OF HEPATOLOGY

CXCR3-dependent recruitment and CCR6-mediated positioning of Th-17 cells in the inflamed liver

(2012) Ye Htun Oo et al.   JOURNAL OF HEPATOLOGY

Human MAIT and CD8   cells develop from a pool of type-17 precommitted CD8+ T cells

(2011) L. J. Walker et al.   BLOOD

GREAT improves functional interpretation of cis-regulatory regions

(2010) Cory Y McLean et al.   NATURE BIOTECHNOLOGY

Genome-wide association analysis in primary sclerosing cholangitis identifies two non-HLA susceptibility loci

(2010) Espen Melum et al.   NATURE GENETICS

Gut Homing Receptors on CD8 T Cells Are Retinoic Acid Dependent and Not Maintained by Liver Dendritic or Stellate Cells

(2009) Bertus Eksteen et al.   GASTROENTEROLOGY

Genome-Wide Association Analysis in Primary Sclerosing Cholangitis

(2009) Tom H. Karlsen et al.   GASTROENTEROLOGY

EASL Clinical Practice Guidelines: Management of cholestatic liver diseases

(2009)   JOURNAL OF HEPATOLOGY

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY