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GoCADiSC SIGNED

Genomics of Chromosome Architecture and Dynamics in Single Cells

Total Cost €

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EC-Contrib. €

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Partnership

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Project "GoCADiSC" data sheet

The following table provides information about the project.

Coordinator
STICHTING HET NEDERLANDS KANKER INSTITUUT-ANTONI VAN LEEUWENHOEK ZIEKENHUIS 

Organization address
address: PLESMANLAAN 121
city: AMSTERDAM
postcode: 1066 CX
website: www.nki.nl

contact info
title: n.a.
name: n.a.
surname: n.a.
function: n.a.
email: n.a.
telephone: n.a.
fax: n.a.

 Coordinator Country Netherlands [NL]
 Total cost 2˙497˙125 €
 EC max contribution 2˙497˙125 € (100%)
 Programme 1. H2020-EU.1.1. (EXCELLENT SCIENCE - European Research Council (ERC))
 Code Call ERC-2015-AdG
 Funding Scheme ERC-ADG
 Starting year 2017
 Duration (year-month-day) from 2017-03-01   to  2022-02-28

 Partnership

Take a look of project's partnership.

# participants  country  role  EC contrib. [€] 
1    STICHTING HET NEDERLANDS KANKER INSTITUUT-ANTONI VAN LEEUWENHOEK ZIEKENHUIS NL (AMSTERDAM) coordinator 2˙497˙125.00

Map

 Project objective

'The spatial architecture of mammalian interphase chromosomes, each consisting of tens of megabases of DNA, poses an intriguing topological problem and is relevant for various nuclear functions. A major challenge is that chromosome architecture exhibits substantial stochastic cell-to-cell variation. To unravel the principles of chromosome organization, new single-cell genome-wide approaches that capture the intrinsic variability are needed. Interphase chromosomes interact extensively with relatively fixed nuclear 'landmarks' such as the nuclear lamina and nucleoli, posing considerable restraints to the spatial organization of chromosomes. For example, about one-third of the mammalian genome interacts with the nuclear lamina. We have recently developed two complementary methods to (i) visualize and track landmark – genome interactions in living cells, and (ii) generate genome-wide maps of these interactions in single cells. These new methods offer unique opportunities to unravel chromosome architecture, taking cell-to-cell variation and dynamics into account. Here I propose to take an integrative approach to study genome – landmark interactions in single mammalian cells. We will: (1) Extend our single-cell methods to visualize and map interactions of the genome with multiple landmarks, and with substantially enhanced genomic and temporal resolution; (2) Elucidate the dynamics and diversity of chromosome architecture in single cells, including differentiating cells; (3) Identify cis-determinants of chromosome - landmark interactions through systematic perturbation of linear chromosome organization, both by targeted mutagenesis and by a random scrambling approach; (4) elucidate the role of various proteins in the global and local control of single-cell dynamics of chromosome organization. These tightly linked approaches will provide detailed understanding of the dynamic architecture of chromosomes in individual cells, and yield new methods and resources. '

 Publications

year authors and title journal last update
List of publications.
2019 Joris van Arensbergen, Ludo Pagie, Vincent D. FitzPatrick, Marcel de Haas, Marijke P. Baltissen, Federico Comoglio, Robin H. van der Weide, Hans Teunissen, Urmo Võsa, Lude Franke, Elzo de Wit, Michiel Vermeulen, Harmen J. Bussemaker, Bas van Steensel
High-throughput identification of human SNPs affecting regulatory element activity
published pages: 1160-1169, ISSN: 1061-4036, DOI: 10.1038/s41588-019-0455-2
Nature Genetics 51/7 2019-10-07
2018 Eva K. Brinkman, Tao Chen, Marcel de Haas, Hanna A. Holland, Waseem Akhtar, Bas van Steensel
Kinetics and Fidelity of the Repair of Cas9-Induced Double-Strand DNA Breaks
published pages: 801-813.e6, ISSN: 1097-2765, DOI: 10.1016/j.molcel.2018.04.016
Molecular Cell 70/5 2019-05-10
2018 Eva K Brinkman, Arne N Kousholt, Tim Harmsen, Christ Leemans, Tao Chen, Jos Jonkers, Bas van Steensel
Easy quantification of template-directed CRISPR/Cas9 editing
published pages: e58-e58, ISSN: 0305-1048, DOI: 10.1093/nar/gky164
Nucleic Acids Research 46/10 2019-05-10
2018 Bas van Steensel
Scientific honesty and publicly shared lab notebooks
published pages: e46866, ISSN: 1469-221X, DOI: 10.15252/embr.201846866
EMBO reports 19/10 2019-05-10

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The information about "GOCADISC" are provided by the European Opendata Portal: CORDIS opendata.

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