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Research interests

I investigate how someone's genetic background (DNA) and non-coding RNA molecules (micro-RNAs (miRNAs) and long non-coding RNAs (lncRNAs)) contribute to the chance of developing a complex genetic, immune-mediated disease such as Celiac disease, Inflammatory Bowel Disease (IBD), Non-alcoholic Steatohepatitis (NASH) and Multiple Sclerosis (MS).

I predominantly use patientmaterial and celllines as disease models, which I manipulate and investigate using the latest 'genomics technologies' like for example CRISPR/Cas9, SNP (single nucleotide polymorphism) arrays, single-cell RNA sequencing, single-cell ATACseq, and oLINK targeted proteomics.

Recently I focus on the development of organ-on-chip platforms. I reprogram patient-derived cells into induced pluriptent stem cells (iPSCs) which in turn I differentiate into intestinal barrier cells, immune cells, bloodvessel cells, or liver cells. The microfluidic intestine-on-chip or liver-on-chip systems that I develop are currently the most promising modelsystems for personalized medicine and pharmacogenetics  applications and research questions because the cells were originally obtained from patients meaning that the genetic background underlying the disease is present.

Publications

Human organoids and organ-on-chips in coeliac disease research

An iPSC-derived small intestine-on-chip with self-organizing epithelial, mesenchymal, and neural cells

Gene expression and eQTL analysis reflect the heterogeneity in the inflammatory status of the duodenal epithelial lining in coeliac disease

Genetic mapping across autoimmune diseases reveals shared associations and mechanisms

Genome-wide association study identifies novel risk variants for celiac disease in the 5p15.33 locus: insights from a population-based screening of adults, the HUNT

High-resolution analysis of the treated coeliac disease microbiome reveals strain-level variation

Intestine-on-chip enhances nutrient and drug metabolism and maturation of iPSC-derived intestinal epithelial cells relative to organoids and Transwells

Potential biomarkers for multiple sclerosis stage from targeted proteomics and microRNA sequencing

Standardizing designed and emergent quantitative features in microphysiological systems

iPSC-derived organ-on-a-chip models for personalized human genetics and pharmacogenomics studies

Press/media

Interview over NCV Stimuleringsprijs in ‘Glutenvrij Magazine’

Minidarm-op-chip: veelbelovend voor onderzoek naar ontstaan coeliakie

Een stukje darm op een chip kan wat onze darm ook kan

An update on the intestine-on-chip and liver-on-chip programs at the UMCG

Glutenintolerantie onderzoeken met minidarmpjes

Darmen op een chip

Iris Jonkers and Sebo Withoff

Grootse plannen met piepkleine organen.