
Our Focus
Epigenetics plays a crucial role in the priming, consolidation and maintenance of transcriptional programs. In our lab, we develop and implement single-cell genomics methods to obtain better insight into the epigenetic mechanisms that govern cellular decision making in early mammalian development and in cancer.
Specifically, we are interested to understand what the role of spatial genome positioning and epigenetics is in gene regulation during mouse development, and understand how different layers of genome organization collectively coordinate and achieve precise spatiotemporal gene expression programs. To this end, we focus on developing technologies that are capable of measuring many of such features simultaneously in single cells.
Secondly, we harness the power of the single-cell technologies, developed in our group, to advance our understanding of the role of epigenetics in tumorigenesis, and, in addition, develop new strategies for improved diagnostic applications.
About Jop Kind

Jop Kind
My Research
Jop Kind received his PhD from the Radboud University Nijmegen in 2008 for his work on chromatin and gene expression performed at the EMBL Heidelberg. He subsequently joined the Netherlands Cancer Institute for his postdoctoral training, where he developed novel methods to study nuclear organization in individual cells. For this work he received the prestigious Antoni van Leeuwenhoek (NKI) and John Kendrew awards (EMBL). In October 2014, he established his research group at the Hubrecht Institute and became a senior group leader in 2019 and a professor of single cell epigenomics at the Radboud University in 2021. His research is supported by an ERC Starting (2016) and Consolidator grant (2021) a NWO Vidi (2016) and his group is a member of two recent consortia grants NWO-PSIDER (2021) and NWO-XL (2022).
Awards
2016: Sir John Kendrew Award
2015: Antoni van Leeuwenhoek Award
Key Publications
Rang FJ, de Luca KL, de Vries SS, Valdes-Quezada C, Boele E, Nguyen PD, Guerreiro I, Sato Y, Kimura H, BakkersJ, Kind J. Single-cell profiling of transcriptome and histone modifications with EpiDamID. Mol Cell. May19;82(10):1956-1970.e14 (2022).
Rullens PMJ, Kind J.Attach and stretch: Emerging roles for genome-lamina contacts in shaping the 3Dgenome. Curr Opin Cell Biol. Jun;70:51-57 (2021).
Markodimitraki CM, Rang F, Rooijers K, de Vries SS, Chialastri A, de Luca KL, Lochs SJA, Mooijman D, Dey SS and Kind J. Simultaneous quantification of protein-DNA contacts and transcriptomes in single cells with scDam&T. Nature Protocols 15:1922-1952 (2020).
Borsos M, Perricone SM, Schauer T, Pontabry J, de Luca KL, de Vries SS, Ruiz-Morales ER, Torres- Padilla ME and Kind J. Genome-lamina interactions are established de novo in the early mouse embryo. Nature 569:729-733 (2019).
Rooijers K, Markodimitraki CM, Rang F, de Vries SS, Chialastri A, de Luca KL, Mooijman D, Dey SS and Kind J. Simultaneous quantification of protein-DNA contacts and transcriptomes in single cells. Nature Biotechnology 37:766-772 (2019).
Members
Jop Kind Oncode Investigator | Christian Valdes Post Doc | Franka Rang PostDoc |
Hidde Verhage PhD student | Isabel Guerreiro Postdoc fellow | Isabel Sierra Post Doc |
Kim de Luca PhD student | Marta Moreno Gonzalez PhD student | Moritz Bauer Post Doc |
Pim Rullens PhD Student | Robin van der Weide Postdoc | Samy Kefalopoulou PhD student |
Sandra de Vries Technician |