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Publications

Streamlined processing and analysis of 16S rRNA amplicon sequencing data with OCMS_16S and OCMSlooksy

Yen S. et al, (2022), Wellcome open research, 7, 68 - 68

Tissue-dependent transcriptional and bacterial associations in primary sclerosing cholangitis-associated inflammatory bowel disease

Ilott NE. et al, (2021), Wellcome open research, 6, 199 - 199

Accurate identification and quantification of commensal microbiota bound by host immunoglobulins.

Jackson MA. et al, (2021), Microbiome, 9

Gut microbiota: sculptors of the intestinal stem cell niche in health and inflammatory bowel disease.

Markandey M. et al, (2021), Gut microbes, 13

Mom's diet matters: Maternal prebiotic intake in mice reduces anxiety and alters brain gene expression and the fecal microbiome in offspring.

Hebert JC. et al, (2021), Brain behav immun, 91, 230 - 244

Recent advances and future directions in microbiome metabolomics

Misheva M. et al, (2021), Current opinion in endocrine and metabolic research

Deconvolution of monocyte responses in inflammatory bowel disease reveals an IL-1 cytokine network that regulates IL-23 in genetic and acquired IL-10 resistance.

Aschenbrenner D. et al, (2020), Gut

Correction: Defining the microbial transcriptional response to colitis through integrated host and microbiome profiling.

Ilott NE. et al, (2020), Isme j, 14

THE MICROBIOLOGY OF PLEURAL INFECTION, AN APPROACH BASED ON 16S RRNA GENE NEXT GENERATION SEQUENCING

Kanellakis NI. et al, (2019), Thorax, 74, A10 - A10

Host-microbial crosstalk in the pathogenesis of inflammation and cancer in Primary Sclerosing Cholangitis (PSC)

Neyazi M. et al, (2019), European journal of immunology, 49, 941 - 941

Systems-level analysis of monocyte responses in inflammatory bowel disease identifies IL-10 and IL-1 cytokine networks that regulate IL-23

ASCHENBRENNER D. et al, (2019)

Host-microbial crosstalk in the pathogenesis of inflammation and cancer in primary sclerosing cholangitis

(2019), Journal of crohn's and colitis

Longitudinal metatranscriptomics reveals bacterial functions promoting gastrointestinal inflammation.

JACKSON M. et al, (2019)

Dysbiosis in the gut microbiome in cross-sectional studies of inflammatory arthritis patients.

Thompson K. et al, (2019)

CGAT-core: a python framework for building scalable, reproducible computational biology workflows

Cribbs AP. et al, (2019), F1000research, 8, 377 - 377

The Short Chain Fatty Acid Butyrate Imprints an Antimicrobial Program in Macrophages.

Schulthess J. et al, (2019), Immunity, 50, 432 - 445.e7

Alpha kinase 1 controls intestinal inflammation by suppressing the IL-12/Th1 axis.

Ryzhakov G. et al, (2018), Nat commun, 9

Foxp3+ T reg cells control psoriasiform inflammation by restraining an IFN-I-driven CD8+ T cell response.

Stockenhuber K. et al, (2018), J exp med, 215, 1987 - 1998

A Large Polysaccharide Produced by Helicobacter hepaticus Induces an Anti-inflammatory Gene Signature in Macrophages.

Danne C. et al, (2017), Cell host microbe, 22, 733 - 745.e5

INTEGRATED OMICS APPROACH REVEALS NOVEL IL-23 TARGETS IN TH17 CELLS

Ryzhakov G. et al, (2016)

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