Interleukin-22 regulates neutrophil recruitment in ulcerative colitis and is associated with resistance to ustekinumab therapy

Polychronis Pavlidis, Anastasia Tsakmaki, Eirini Pantazi, +21

Nature Communications

COVID19 Disease Map, a computational knowledge repository of virus–host interaction mechanisms

Marek Ostaszewski, Anna Niarakis, Alexander Mazein, +136

Molecular Systems Biology

Regulatory network analysis of Paneth cell and goblet cell enriched gut organoids using transcriptomics approaches

Agatha Treveil, Padhmanand Sudhakar, Zoë Matthews, +13

Molecular Omics

GeneticsPaneth CellTranscriptomics TechnologyGene Regulatory NetworkGenomics +19

Bifidobacterium breve UCC2003 Exopolysaccharide Modulates the Early Life Microbiota by Acting as a Potential Dietary Substrate

Deborah Püngel, Agatha Treveil, Matthew J. Dalby, +8

Nutrients

Cytokine responsive networks in human colonic epithelial organoids unveil a molecular classification of inflammatory bowel disease

Polychronis Pavlidis, Anastasia Tsakmaki, Agatha Treveil, +10

Cell Reports

Bifidobacterium breve UCC2003 Induces a Distinct Global Transcriptomic Program in Neonatal Murine Intestinal Epithelial Cells

Raymond Kiu, Agatha Treveil, Lukas C. Harnisch, +5

iScience

DysbiosisMicrobial PathogensTranscriptional RegulationGut-organ AxisMicrobial Interactions +18

Integrative analysis of Paneth cell proteomic and transcriptomic data from intestinal organoids reveals functional processes dependent on autophagy

Emily Jones, Zoë Matthews, Lejla Gul, +16

Disease Models & Mechanisms

CytokineLink: A Cytokine Communication Map to Analyse Immune Responses—Case Studies in Inflammatory Bowel Disease and COVID-19

Márton Ölbei, John P. Thomas, Isabelle Hautefort, +7

Cells

ViralLink: An integrated workflow to investigate the effect of SARS-CoV-2 on intracellular signalling and regulatory pathways

Agatha Treveil, Balázs Bohár, Padhmanand Sudhakar, +9

PLoS Computational Biology

EngineeringViral DiagnosticsViral PathogenesisImmunologyViral Structural Protein +15

COVID-19 Disease Map, a computational knowledge repository of SARS-CoV-2 virus-host interaction mechanisms

Marek Ostaszewski, Anna Niarakis, Alexander Mazein, +134