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Gene Regulation: Bas van Steensel

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Bas van Steensel, Ph.D professorGroup leader

About Bas van Steensel

Chromatin Genomics

Research interest
Chromatin is probably the most complex molecular ensemble in the cell. It consists of genomic DNA bound by hundreds of protein and RNA molecules. All of these components work in concert, and cannot be fully understood unless they are studied in their complete context. In addition, the spatial organization of interphase chromosomes is thought to be of key importance for genome expression and maintenance. Yet, this three-dimensional chromosome organization and its impact on gene regulation and other functions are still poorly understood.

In order to gain insight into these fundamental processes, we take a broad integrative genomics approach, using both fruit fly and mammalian cells as model systems. We conduct our studies in the living cell, in the context of the entire genome. We develop and apply new genomics techniques to reveal the interplay among many chromatin proteins, to visualize the architecture of chromosomes inside the nucleus, and to detect the genome-wide effects of these factors on gene expression. We analyze the large datasets that we generate using a range of bioinformatics approaches.

Available positions
From time to time we have positions available for PhD students, postdocs, bioinformaticians or technicians. Please send your application and CV to b.v.steensel@nki.nl if you are interested.

Co-workers

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Mario Amendola

Postdoctoral fellow

Personal details

Experience

The nuclear lamina interacts with large genomic regions indicated as lamina-associated domains (LADs) and constitutes a repressive chromatin environment. How LADs are recruited to the nuclear lamina and how this interaction contributes to the nonrandom spatial organization of chromosomes is still poorly understood. My research focus is understanding the functional role and the mechanism of action of specific nuclear envelope proteins in mediating these processes.

 

 

 

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Joris van Arensbergen

Postdoctoral fellow

Experience

I'm interested in how chromatin domains are established and the role that discrete genomic elements play in this, particularly in repressed chromatin. Therefore I'm setting up a novel screen to functionally identify sequences that play a role in repressive chromatin formation. 

 

 

 

 

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Eva Brinkman

PhD student

Personal details

Experience

I started my study Life Science & Technology at the Delft University of Technology and Leiden University. As a student I participated in the international synthetic biology competition, iGEM, where our team finished as one of the six finalists. After completing my studies, I co-founded a company that is engaged in education and communication of life sciences. Although running a company is a great experience, I still was eager to extend my scientific knowledge and skills in fundamental research. At the NKI, I am working at the regulation of DNA repair in relation to the location and status of chromatin.

 

 

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Tao Chen

PhD student

Personal details

Experience

I have been doing my PhD in van Steensel lab since 2012, working on the connections between chromatin and mRNA. I am focusing on chromatin control of mRNA stability and transcription termination. I have been having a good time here, particularly because the lab has such a strong interdisciplinary atmosphere where I have chance to address important questions both experimentally and computationally. I wish to be able to contribute some important insights to biology by the end of my PhD.

 

 

 

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Carolyn de Graaf

Postdoctoral fellow

Personal details

Experience

I received my PhD from The Walter and Eliza Hall Institute of Medical Research in Melbourne, Australia in 2010, before starting in the Van Steensel group in 2011. My PhD studies looked at the genetic regulation hematopoiesis, in particular during megakaryocyte development and platelet production.
I am currently investigating factors involved in the regulation of interactions between the genome and the nuclear lamina, using a high-througput DamID-based screen.

 

 

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Marcel de Haas

Technician

Personal details

Experience

I entered the NKI in 1991 for an internship at the division of Cellular Biochemistry. After graduating I applied for a job as research technician in the Multi Drug Resistance group of Piet Borst at the division of Molecular Biology. I started to learn the ways of molecular biology and I learned how to survive and love doing research at the NKI. After being lab manager for 7 years I decided after 20 years to change groups and applied for a position in the group of Bas van Steensel, where I develop a 96-well version of DamID.

 

 

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Jop Kind

Postdoctoral fellow

Personal details

Experience

I received my PhD from the EMBL Heidelberg, Germany in 2008 in partnership with the Radboud University Nijmegen, The Netherlands. During my PhD I worked in the lab of Asifa Akhtar where I studied the process of dosage compensation in flies. I joined the Van Steensel group as a postdoc in 2008. Currently I am developing novel tools to study the dynamics of genome - nuclear lamina interactions in single cells.

 

 

 

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Ludo Pagie

Postdoctoral fellow

Personal details

Experience

I am a bioinformatician collaborating on several projects in the group. My expertise is in analysis of genome wide data, primarily DamID and expression data, and the analysis of sequence data in the context of barcoded reporter assays.
For the institute I organize bioinformatics courses. Personally I teach an introductory R and statistics course. In addition I also organize several in-house seminar series.

 

 

 

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Sandra de Vries

Technician

Personal details

Experience

After working 16 years in the group of Hein te Riele on DNA mismatch repair and oligotargeting, I recently broadened my horizon by joining the group of Bas van Steensel. Here I started working on chromatin organization and specifically on its interaction with the nuclear lamina.

 

 

 

 

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Laura Brückner

PhD student

Experience

I graduated from the University of Vienna, Austria with a master's degree in Molecular Biology but originally hail from Germany. My research interests lie in gene regulation and epigenetics and I joined the NKI in November 2013. For my PhD I am working on the protein-mediated regulation of chromatin states in drosophila cells. 

 

 

 

 

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J Omar Yáñez Cuna

Postdoctoral fellow

Experience

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Key publications View All Publications

  • Systematic protein location mapping reveals five principal chromatin types in Drosophila cells

    Cell. 2010; 143: 212-24

    Filion GJ, van Bemmel JG, Braunschweig U, Talhout W, Kind J, Ward LD, Brugman W, de Castro IJ, Kerkhoven RM, Bussemaker HJ, van Steensel et al.

    Link to Pubmed
  • Molecular maps of the reorganization of genome-nuclear lamina interactions during differentiation

    Mol Cell. 2010; 38: 603-13

    Peric-Hupkes D, Meuleman W, Pagie L, Bruggeman SW, Solovei I, Brugman W, Gräf S, Flicek P, Kerkhoven RM, van Lohuizen M, Reinders M, Wessels et al.

    Link to PubMed
 
 

Recent publications View All Publications

  • Single-cell dynamics of genome-nuclear lamina interactions

    Cell. 2013; 153: 178-92

    Kind J, Pagie L, Ortabozkoyun H, Boyle S, de Vries SS, Janssen H, Amendola M, Nolen LD, Bickmore WA, van Steensel B.

    Link to PubMed
  • Genome architecture: domain organization of interphase chromosomes

    Cell. 2013; 152: 1270-84

    Bickmore WA, van Steensel B.

    Link to PubMed
 

Contact

  • Office manager

    Suzanne Corsetto

  • E-mail

    s.corsetto@nki.nl

  • Telephone Number

    + 31 20 512 1970

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