
Spatial organisation of the genome
Spatial organisation of the genome
Research in our group is focussed on understanding the relationship between the three-dimensional folding of the genome and its functional outputs such as gene transcription. Previous research from group members has shown that the genome is organised into distinctly folded modules, or “topological domains”, which closely mirror the patterns of epigenetic marks (e.g. histone modifications) on the underlying chromatin fibre. This suggests an intimate relationship between gene expression and chromosome folding, although it is unclear if chromatin structure is a cause or consequence of gene activity. Using T cell development and mouse ES cells as model systems, we study the genomic conformations throughout the large-scale epigenetic and gene expression changes accompanying cellular differentiation. We aim to assess if, and how, chromosome folding can influence transcription. Our work will show how programmes of genes can be co-ordinately regulated, but will also provide insights into pathologies such as cancers, and by engineering autonomous chromatin domains, may also provide tools for gene therapy.
Members
Researchers
Engineers
Publications
2021
Age-related and disease locus-specific mechanisms contribute to early remodelling of chromatin structure in Huntington’s disease mice
- Rafael Alcalá-Vida
- Jonathan Seguin
- Caroline Lotz
- Anne Molitor
- Ibai Irastorza-Azcarate
- Ali Awada
- Nezih Karasu
- Aurélie Bombardier
- Brigitte Cosquer
- Jose Luis Gomez Skarmeta
- Jean-Christophe Cassel
- Anne-Laurence Boutillier
- Thomas Sexton
- Karine Merienne
Nature Communications ; Volume: 12 ; Page: 364
Precise measurements of chromatin diffusion dynamics by modeling using Gaussian processes
- Guilherme Oliveira
- Attila Oravecz
- Dominique Kobi
- Manon Maroquenne
- Kerstin Bystricky
- Thomas Sexton
- Nacho Molina
Nature Communications ; Volume: 12 ; Page: 6184
Precise measurements of chromatin diffusion dynamics by modeling using Gaussian processes
- Guilherme Monteiro Oliveira
- Attila Oravec
- Dominique Kobi
- Manon Maroquenne
- Kerstin Bystricky
- Thomas Sexton
- Nacho Molina
Nature Communications ; Volume: 12
4C-Seq: Interrogating Chromatin Looping with Circular Chromosome Conformation Capture
- Nezih Karasu
- Thomas Sexton
Methods in molecular biology (Clifton, N.J.) ; Volume: 2157 ; Page: 19-34
Assessment of 3D Interactions Between Promoters and Distal Regulatory Elements with Promoter Capture Hi-C (PCHi-C)
- Nezih Karasu
- Thomas Sexton
Methods in molecular biology (Clifton, N.J.) ; Volume: 2351 ; Page: 229-248
2020
Alternative Enhancer Usage and Targeted Polycomb Marking Hallmark Promoter Choice during T Cell Differentiation
- Muhammad Ahmad Maqbool
- Léo Pioger
- Amal Zine El Aabidine
- Nezih Karasu
- Anne Marie Molitor
- Lan T M Dao
- Guillaume Charbonnier
- Francois van Laethem
- Romain Fenouil
- Frederic Koch
- Georges Lacaud
- Ivo Gut
- Marta Gut
- Sebastian Amigorena
- Olivier Joffre
- Thomas Sexton
- Salvatore Spicuglia
- Jean-Christophe Andrau
Cell Reports ; Volume: 32
2017
Single-cell absolute contact probability detection reveals chromosomes are organized by multiple low-frequency yet specific interactions
- Diego Cattoni
- Andrés M Cardozo Gizzi
- Mariya Georgieva
- Marco Di Stefano
- Alessandro Valeri
- Delphine Chamousset
- Christophe Houbron
- Stephanie Déjardin
- Jean-Bernard Fiche
- Inma González
- Jia-Ming Chang
- Thomas Sexton
- Marc A Marti-Renom
- Frederic Bantignies
- Giacomo Cavalli
- Marcelo Nollmann
Nature Communications ; Volume: 8 ; Page: 1753
Detecting Spatial Chromatin Organization by Chromosome Conformation Capture II: Genome-Wide Profiling by Hi-C
- Matteo Viettri Rudan
- Suzana Hadjur
- Thomas Sexton
Methods in Molecular Biology ; Volume: 1589 ; Page: 47-74