Members











Lecturer in bioinformatics. Working on cancer- and evolutionary genomics

Lecturer on Programming and Statistics for MBLS

Working on: I support the Theoretical Biology group with their education in math (for biologists) and complexity courses (for sciences)

Working on: Studying rhizosphere competency of root associated bacteria using metagenomics (supervisor: Bas Dutilh)

Working on: Evolution and diversification of eukaryotic metabolisms. (Supervisor: Berend Snel)

Working on: modeling plant-microbiome interactions in the rhizosphere in response to plant stress. Part of the MiCRop project (supervisor: Bas Dutilh)

Woking on: Multi-scale modeling of lateral root development (supervisor Kirsten Ten Tusscher)

Working on: Microbiome manipulation by fungal plant pathogens (supervisor: Michael Seidl)

Working on: Genome analysis of fungal banana pathogens to detect pathogenicity genes (supervisor: Michael Seidl)

Working on: Modelling memory T cell maintenance (supervisor: Rob de Boer)

Working on: Regulation of sucrose/water transport and tuber growth by the StSWEET11/StSP6A interaction in potato (supervisor: Kirsten ten Tusscher)

Working on: modelling of metagenomic community dynamics (supervisors: Bas Dutilh, Berend Snel, Paulien Hogeweg)

Working on: Studying evolution of crAss-like phage proteins (supervisor: Bas Dutilh)

Working on: Chromatin dynamics in fungal plant-pathogens (supervisor: Michael Seidl)

Working on: Mathematical models of the immune system and T cell dynamics (supervisor: Rob de Boer)


Working on: the evolution of microbial ecosystems in multilevel models (supervisors: Bas E Dutilh, Paulien Hogeweg)

Working on: gene duplications during eukaryogenesis (supervisor: Berend Snel)
Working on: HIV modelling in children, viral and immune system dynamics associated with response to ART (supervisor: Rob de Boer)

Working on: evolution of the kinetochore complex (supervisor: Berend Snel)

Working on: kinase evolution and function (supervisor: Berend Snel)

Working on: tools for viral identification from metagenomic data (Supervisor: Bas Dutilh)

Working on: The evolution of the kinetochore (supervisors: Berend Snel, Geert Kops)

Working on: Analysis and modelling of metagenomic and metabolomic data from the Caribbean Sea (supervisor: Bas Dutilh)

Working on: dynamics of immune repertoires (supervisor: Rob de Boer)

Working on: high-quality genomes of spinach downy mildew isolates to identify effectors (supervisor: Michael Seidl)

Supervisor: Bas Dutilh
Working on: modelling endosymbiosis and the evolution of genomes and networks during eukaryogenesis (supervisors: Berend Snel, Paulien Hogeweg)

Working on: understanding the genetic and phenotypic variation in Lettuce via GWAS, QTL mapping and multi-omics data integration. (LettuceKnow project, supervisor: Basten Snoek)

Working on: root system adaptation (supervisor: Kirsten ten Tusscher)

Working on: environmental metagenomics, phage-host interaction (supervisor: Bas Dutilh)

Working on: gene family evolution in fungi (supervisor: Michael F Seidl)
Working on: evolution and function of PRC1 & PRC2 (supervisor: Berend Snel)

Working on: Development of Basic Machine Learning for Bioinformatics course for the BiBC Master, other courses (supervisor: Berend Snel)

Working on: chromatin and expression data in the hybrid fungus Verticillium longisporum (supervisor: David Torres Sanchez)
Working on: modelling stochastic effects in gene regulation of E. Coli (supervisor: Laurens Krah)

Working on: Identifying antibiotic resistance genes in metagenomic samples (supervisor: Rick Beeloo)

Working on: Polyspecificity of T cell receptor repertoire with single-cell data (supervisor: Peter de Greef)

Analyzing the influence of plant pathogens on abundance of Sphingomonads in the plant microbial community (supervisor: Nick Snelders)

Working on: Predicting the effect of checkpoint inhibitor therapy for cancer patients using machine learning techniques (Supervisor: Can Kesmir)
Working on: Evolutionary transitions in individuality (Supervisor: Rutger Hermsen)

Working on: How gene order conservation is linked to gene expression regulation in the fungal genus Aspergillus (supervisor: Xin Zhang)

Working on: The role of fission/fusion dynamics in maintaining genome integrity of mitochondria (supervisor: Paulien Hogeweg)

Working on: Assing the performance of phage-host prediction tools using paired viromics and total metagenomics datasets (supervisor: Lingyi Wu)

Working on: Modelling nitrate dynamics in split roots (supervisor: Bas van den Herik)

Working on: The role of CD4 T cell and immunoglobulin-mediated cross-reactivity with common cold human coronaviruses in COVID-19 disease outcome (supervisor: Can Kesmir)

Working on: Cross-reactivity of influenza and ADAMTS13 peptide as initiator of auto-immunity in acquired TTP (supervisor: Can Kesmir)

Working on: Developing pipeline for detecting non-canonical, neo-antigens that originate from non-coding regions (supervisor: Can Kesmir)

Working on: Identifying transposable element polymorphisms in fungal pathogens of bananas using short- and long-read sequencing data (supervisor: Anouk van Westerhoven)

Working on: the systematic characterization of spinach downy mildew effectors (supervisor: Petros Skiadas)

Wprlong on: possible genetic interactions within pediatric myeloid leukemia with the use of DISCOVER (supervisor: Josephine Daub)

Working on: predicting autoimmune disease based on molecular mimicry (supervisor: Can Kesmir)

Working on: binding preferences of HLA molecules for different SARS-CoV-2 proteins (supervisor: Can Kesmir)