
Our Focus
The main focus of our lab is to decipher (epi)genetic regulation of gene expression and cell fate in (differentiated) stem cells using integrative omics approaches. Furthermore, we use the same technology to study deregulation of gene expression in cancer. Our lab also develops new proteomics and genomics technology for cancer research, which we make available to the Oncode community.
Current main research questions include:
- What are the molecular mechanisms of context-dependent oncogenes and tumour suppressors in CRC
- How do chromatin associated proteins synergize with transcription factors to regulate gene expression and cell fate?
About Michiel Vermeulen

Michiel Vermeulen
My Research
Michiel Vermeulen performed his doctoral work in the laboratory of Henk Stunnenberg at the University of Nijmegen in the Netherlands. In 2005 he joined the lab of Matthias Mann in Munich, Germany as a post-doctoral fellow. In 2009 he was appointed as assistant professor and in 2013 as associate professor at the University Medical Center Utrecht in The Netherlands. In February 2014 he was appointed as full professor at the Radboud University in Nijmegen, The Netherlands. Since February 2023 he also holds a part-time position as senior group leader at the Dutch Cancer Institute. The group currently consists of 8 PhD students, 5 post-docs and 3 technicians. Awarded grants include NWO-VIDI (2009), an ERC Starting Grant (2012), an ERC Consolidator Grant (2017) and an NWO-VICI (2021). He was elected as member of Academia Europeae in 2019 and an a member of EMBO in 2022.
Awards
2008: Max Planck Institute for Biochemistry Junior Research Award.
2000: Van Nieuwenhoven award for best undergraduate student in biology, University of Nijmegen
Key Publications
Kliza KW, Liu Q, Roosenboom LWM, Jansen PWTC, Filippov DV, Vermeulen M. (2021) Reading ADP-ribosylation using chemical biology and interaction proteomics. Molecular cell, 81(21), 4552-4567.
Santos-Barriopedro I, van Mierlo G, Vermeulen M (2021). Off-the-shelf proximity biotinylation for interaction proteomics. Nature Communications, 12(1):5015.
Edupuganti RR, Geiger S, Lindeboom RGH, Shi H, Hsu PJ, Lu Z, Wang SY, Baltissen MPA, Jansen PWTC, Rossa M, Müller M, Stunnenberg HG, He C, Carell T, Vermeulen M. (2017) N6-methyladenosine (m6A) recruits and repels proteins to regulate mRNA homeostasis. Nature Structural and Molecular Biology, 24(10):870-878.
Zhang, X., Smits, A. H., van Tilburg, G. B., Jansen, P. W., Makowski, M. M., Ovaa, H., & Vermeulen, M. (2017). An interaction landscape of ubiquitin signaling. Molecular cell, 65(5), 941-955.
Spruijt, C. G., Gnerlich, F., Smits, A. H., Pfaffeneder, T., Jansen, P. W., Bauer, C., ... & Eberl, H. C. (2013). Dynamic readers for 5-(hydroxy) methylcytosine and its oxidized derivatives. Cell, 152(5), 1146-1159.
Members
Michiel Vermeulen Group leader | Aniek Martens Phd student | Aniek Verstappen Phd student |
Balaji Srinivasan PostDoc | Inge De Krijger Postdoc | Lieke Lamers Technician |
Margit Janssen PhD student | Maria-Teresa Alejo Vinogradova Phd student | Marijke Baltissen Technician |
Martijn Hendriksen Research analyst | Suzan Stelloo Post Doc | |
Suzanne Weijers Phd student | Yunna Erika Strøm PhD student | |