Members
Berend Snel
Professor
Kirsten ten Tusscher
Professor
Rob de Boer
Emeritus professor
Ronald Bontrop
Emeritus professor
Paulien Hogeweg
Honorary professor
Bas E Dutilh
Visiting Professor
Basten Snoek
PI
Bram van Dijk
PI
Working on: Simulating complex microbial ecosystems to identify their fundamental rules
Can Kesmir
PI
Daniel Tamarit
PI
Working on: archaeal and bacterial genome evolution
Erika Tsingos
PI
Working on: Modelling animal development using multicellular models
Michael F Seidl
PI
Monica Garcia-Gomez
PI
Woking on: Multi-scale modeling of lateral root development
Rutger Hermsen
PI
Vivek Bhardwaj
PI
Working on: Developing new bioinformatics tools and methods for quantitative genomics
Leonie van Steijn
Lecturer
Lecturer on Programming and Statistics for MBLS
Laura Dijkhuizen
Lecturer
Working on: PhD courses from basic programming to more advanced techniques like RNAseq, microbiome data analysis, and advanced data visualisation
Tina Hauptfeld
Lecturer
Lecturer for bioinformatics and programming in undergraduate studies of the Biology department
Bas van den Herik
Post-Doc
Working on: Regulation of sucrose/water transport and tuber growth by the StSWEET11/StSP6A interaction in potato (supervisor: Kirsten ten Tusscher)
Bastiaan von Meijenfeldt
Post-Doc
Working on: (supervisor: Berend Snel)
Benjamin Planterose Jimenez
Post-Doc
Working on: Modelling cellular fate decision making in the postembryonic M lineage of C. elegans (Supervisors: Erika Tsingos, Kirsten ten Tusscher)
Carlos Santana-Molina
Post-Doc
Working on: Evolution and diversification of eukaryotic metabolisms. (Supervisor: Berend Snel)
Chrats Melkonian
Post-Doc
Working on: modeling plant-microbiome interactions in the rhizosphere in response to plant stress. Part of the MiCRop project (supervisor: Bas Dutilh)
Paula Gomez-Zapata
Post-Doc
Working on: investigating the genomic features that drive the switch between the heteroecious and autoecious forms in the rust fungus Cronartium pini (supervisor: Michael Seidl)
Saber Shakibi
Post-Doc
Working on: Modelling mechanics of cell migration (supervisor: Erika Tsingos)
Anouk van Westerhoven
PhD candidate
Working on: Genome analysis of fungal banana pathogens to detect pathogenicity genes (supervisor: Michael Seidl)
Bram van Eijnatten
PhD Candidate
Working on: High throughput phenotyping of lettuce for GWAS using machine learning (supervisor: Basten Snoek)
Bryan Verhoef
PhD Candidate
Working on: numerical modelling of evolution in spatially structured bacterial populations (supervisors: Rutger Hermsen, Joost de Graaf)
David Giron Villalobos
PhD Candidate
Working on: Metagenomics of urobiomes in health and disease (supervisor: Michael Seidl, Bas Dutilh)
Erdem Sanal
PhD candidate
Working on: Mathematical models of the immune system and T cell dynamics (supervisor: Rob de Boer)
Fernando Sancho Gomez
PhD candidate
Working on: The role of histone post-translational modifications and transcription factor isoforms in cell fate decisions (Supervisor: Vivek Bhardwaj)
Janne Bibbe
PhD candidate
Working on: translating stress resistance models from A. thaliana to other (crop) species using comparative genomics and transcriptomics (supervisor: Berend Snel)
Jeroen Meijer
PhD candidate
Working on: the evolution of microbial ecosystems in multilevel models (supervisors: Bas E Dutilh, Paulien Hogeweg)
Jeroen Saccheri
PhD candidate
Working on: Multi-Scale models of carbon, nitrogen, and phosphorus regulation in Arabidopsis thaliana (supervisor: Kirsten ten Tusscher)
Josje Romeijn
PhD candidate
Working on: the role of transposable elements in fungal genome evolution (supervisor: Michael Seidl)
Lingyi Wu
PhD candidate
Working on: tools for viral identification from metagenomic data (Supervisor: Bas Dutilh)
Max Raas
PhD candidate
Working on: The evolution of the kinetochore (supervisors: Berend Snel, Geert Kops)
Meine D Boer
PhD candidate
Working on: Analysis and modelling of metagenomic and metabolomic data from the Caribbean Sea (supervisor: Bas Dutilh)
Petros Skiadas
PhD candidate
Working on: high-quality genomes of spinach downy mildew isolates to identify effectors (supervisor: Michael Seidl)
Rick Beeloo
PhD candidate
Supervisor: Bas Dutilh
Sarah Mehrem
PhD candidate
Working on: understanding the genetic and phenotypic variation in Lettuce via GWAS, QTL mapping and multi-omics data integration. (LettuceKnow project, supervisor: Basten Snoek)
Sultan Nazir
PhD candidate
Working on: Multiscale models of phage evolution and bacterial pathogenicity (supervisor: Bram van Dijk)
Thijs van Loo
PhD candidate
Working on: Mechanistic modelling of heat and drought stress in Arabidopsis Thaliana. (supervisors: Kirsten ten Tusscher, Monica Garcia Gomez)
Oscar Jordan
Research Assistant
Developing new methods to impove our ability of predicting T-cell cross-reactivity (supervisor: Can Kesmir)
Bidayatul Masulah
MSc student
Working on: developing a dynamic computational model of thymic epithelial cell morphology to study interactions with thymocytes using Tissue Forge (supervisor: Erika Tsingos)
Corine Breukers
MSc student
Working on: Combining constraint-based methods with robust optimization and stochastic optimization to take (large) interindividual variation in gene expression into account in metabolic modelling (supervisor: Leonie van Steijn)
Cristina Serra Melendez
MSc student
Working on: Chemical and molecular interaction between phyllosphere yeast and mycotoxigenic Fusarium graminearum using genomic data (WGS) and metabolomic data (supervisor: Chrats Melkonian)
D Erdem Kertmen
MSc student
Working on: A random-forest driven tool for predicting the cross-reactivity of CD8+ T-cells (supervisor: Can Kesmir)
Eleni Manousou
MSc student
Working on: unraveling the effect of different substrate amendments on the microbiome and plant yield (supervisor: Bram van Eijnatten)
Gabe van den Hoeven
MSc student
Working on: A T-cell receptor repertoire analysis to find out why some sequences lack a D-segment from VDJ-recombination (supervisor: Rob de Boer)
Griffin Kutler Dodd
MSc student
Working on: Investigating evolution of MHC genes in primates using in silico epitope prediction methods (supervisor: Can Kesmir)
Nikki Landzaat
MSc student
Working on: modelling cell proliferation, quiescence and differentiation in the C. elegans postembryonic mesodermal lineage (supervisor: Benjamin Planterose Jiménez)
Suzanne van Melzen
MSc student
Working on: Metabolic modeling of pathogen-inhibiting interactions within microbial communities in the plant phyllosphere (supervisor: Chrats Melkonian)
Teun Geurts
MSc student
Working on: We aim to uncover the polymorphic master regulators of gene expression in Lactuca sativa roots (supervisor: Sarah Mehrem)
Timo Westerdijk
MSc student
Working on: reviewing the impact of mathematical modelling on the understanding of and the development of treatment for HIV (supervisor: Rob de Boer)
Wilco Hermens
MSc student
Working on: Predicting disease outbreaks based on phylogenetic data (supervisor: Sultan Nazir)
Wouter Compaan
MSc student
Working on: spatial models in relation to generalists, specialist and metabolic complexity (supervisor: Paulien Hogeweg)
Heleen van Osch
BSc student
Working on: modelling microvillus development in C.elegans (supervisor: Erika Tsingos)
