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Post-doctoral position: linking chromatin remodellers and CTCF in mammalian topological domain structure and function

ABG-47841 Job Junior
2017-11-14 24 Month > €25,000 and < €35,000 annual gross
I2BC
Gif-sur-Yvette/Saclay - Ile-de-France - France
  • Biochimie
  • Biologie
Epigenome, chromatin remodellers, Topologically Associating Domains (TADs), genome-wide analysis
Research and Development

Employer

The Institute for Integrative Biology of the Cell (I2BC) UMR 9198 is a “Unité Mixte de Recherche” (joint research unit ; UMR ) supported by both Université Paris-Sud, the CNRS and the CEA.
The Institute regroup 80 teams of scientists, 15 technological facilities from 8 research units (CGM, IBBMC, IGM, ISV, LEBS, VMS, SB2SM, SBiGeM)
The Institute is in 3 research campus (Orsay Campus of the Université Paris Sud, Gif Sur Yvette Campus of CNRS, and Saclay Campus of CEA) with 14 buildings. All the I2BC activities will be join on the Gif-sur-Yvette Campus in 2018.

Position and assignments

A post-doctoral positions is open in the team of Matthieu GERARD at the institute for integrative biology of the cell (I2BC, Gif-sur-Yvette, France) to study how ATP-dependent chromatin remodellers regulate the 3D organization of the mammalian genome.
ATP-dependent chromatin remodelling factors (‘remodellers’) are essential for correct chromosome structure and function. Remodellers perform diverse roles that include facilitating nucleosome assembly and disassembly, transiently exposing nucleosomal DNA and nucleosome sliding. Recently, the GERARD team has systematically investigated the function of a large number of remodellers in embryonic stem (ES) cells, thereby revealing their links with gene expression and enhancer function (de Dieuleveult et al. Nature 2016; PMID: 26814966).
Our analysis revealed that nine of the remodellers are also enriched at genomic sites that are bound by the architectural CTCF protein. CTCF is a DNA-binding protein known for its chromatin insulator and enhancer blocking functions. Recent studies have revealed that CTCF binding, through its association with the Cohesin complex, forms the borders of TADs (Topologically Associating Domains) and other 3D DNA domains (referred to as sub-TADs).
Our preliminary experiments indicate that several remodellers can affect the binding of CTCF at subsets of its binding sites.
The post-doc project will first consist in describing how CTCF co-localizes with nine different remodellers in an orientation dependent manner at different types of DNA domains (TADs and various types of sub-TADs) in mouse ES cells. Using ChIP-seq, the post-doc will dissect how the nine remodellers contribute to CTCF binding and Cohesin stabilization. Then, using a combination of high resolution Hi-C and HiChIP approaches, the post-doc will analyse how loss-of-function of each remodeller affects the formation of different types of 3D DNA domains. This project will be realized in collaboration with the team of Daan Noordermeer (I2BC, Gif-sur-Yvette), expert in the analysis of mammalian genome 3D organization.

Mobilité géographique :

No business trip

Prise de fonction :

2018-02-01

Profile

We are looking for an enthusiastic, recently graduated PhD student for this position. The hired post-doc will be in charge of doing both the wet biology experiments and the associated bioinformatics analysis. Applicants should have a strong background in molecular biology and biochemistry. A prior experiment in genome-wide approaches and bioinformatics would be an advantage but is not mandatory, as this expertise will be acquired in the host laboratory.

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