, Molecular Biology of the Cell, vol.5, 2007.
An Overview of Genome Organization and How We Got There: from FISH to Hi-C, Microbiol Mol Biol Rev, vol.79, issue.3, pp.347-372, 2015. ,
A guide to super-resolution fluorescence microscopy, Journal of Cell Biology, vol.190, issue.2, p.20643879, 2010. ,
Chromatin fibers are formed by heterogenous groups of nucleosomes in vivo, Cell, vol.160, issue.6, pp.1145-1158, 2015. ,
Bridging the Resolution Gap in Structural Modeling of 3D Genome Organization, PLoS Comput Biol, vol.7, issue.7, 2011. ,
Computational Models of Large-Scale Genome Architecture, Int Rev Cell Mol Biol, vol.307, pp.275-350, 2014. ,
URL : https://hal.archives-ouvertes.fr/pasteur-02079507
Higher-order structure of chromatin and chromosomes, Curr Opin Genet Dev, vol.11, issue.2, pp.130-135, 2001. ,
A fractal model for nuclear organization: current evidence and biological implications, Nucleic Acids Res, vol.40, issue.18, pp.8783-8792, 2012. ,
URL : https://hal.archives-ouvertes.fr/inserm-00718260
Coming to terms with chromatin structure, Chromosoma, p.26223534, 2015. ,
Chromatin structure: does the 30-nm fibre exist in vivo?, Curr Opin Cell Biol, vol.22, pp.291-297, 2010. ,
Chromosome territories, nuclear architecture and gene regulation in mammalian cells, Nature Rev Genet, vol.2, pp.292-301, 2001. ,
Super-resolution imaging reveals distinctchromatin folding for different epigenetic states, Nature, vol.529, p.418, 2016. ,
Chromatin decondensation is sufficient to alter nuclear organization in embryonic stem cells, Science, vol.346, issue.6214, pp.1238-1242, 2014. ,
Activation of Estrogen-Responsive Genes Does Not Require Their Nuclear CoLocalization, Plos Genetics, vol.6, p.20421946, 2010. ,
URL : https://hal.archives-ouvertes.fr/hal-00611864
Structure and dynamics of interphase chromosomes, Plos Comput Biol, vol.4, 2008. ,
Looping probabilities in model interphase chromosomes, Biophys J, vol.98, pp.2410-2419, 2010. ,
Colocalization of Coregulated Genes: A Steered Molecular Dynamics Study of Human Chromosome 19, Plos Comput Biol, vol.9, issue.3, p.1003019, 2013. ,
Viscoelasticity of model interphase chromosomes, J Chem Phys, issue.24, p.25554185, 2014. ,
Histone Depletion Facilitates Chromatin Loops on the Kilobasepair Scale, vol.99, pp.2995-3001, 2010. ,
Complexity of chromatin folding is captured by the strings and binders switch model, Proc Natl Acad Sci USA, vol.109, pp.16173-16178, 2012. ,
Modeling epigenome folding: formation and dynamics of topologically associated chromatin domains, Nucleic Acids Research, vol.42, issue.15, pp.9553-9561, 2014. ,
URL : https://hal.archives-ouvertes.fr/hal-01976500
Capturing Chromosome Conformation, Science, vol.295, p.1306, 2002. ,
Exploring the three-dimensional organization of genomes: interpreting chromatin interaction data, Nat Rev Genet, vol.14, pp.390-403, 2013. ,
Spatial genome organization: contrasting views from chromosome conformation capture and fluorescence in situ hybridization, Genes Dev, vol.28, issue.24, pp.2778-2791, 2014. ,
Chromosomal dynamics in the yeast interphase nucleus, Science, vol.293, pp.2181-2186, 2001. ,
Visualizing yeast chromosomes and nuclear architecture, Methods Enzymol, vol.470, pp.535-567, 2010. ,
Comprehensive mapping of long-range interactions reveals folding principles of the human genome, Science, vol.326, pp.289-293, 2009. ,
Restraint-based three-dimensional modeling of genomes and genomic domains, FEBS Letters, 2015. ,
Modeling chromosomes: Beyond pretty pictures, FEBS Lett, vol.589, pp.3031-3036, 2015. ,
Long-range compaction and flexibility of interphase chromatin in budding yeast analyzed by high-resolution imaging techniques, Proc Natl Acad Sci USA, vol.101, pp.16495-16500, 2004. ,
Ring polymers in the melt state: the physics of crumpling, Phys Rev Lett, vol.112, p.118302, 2014. ,
SAGA interacting factors confine sub-diffusion of transcribed genes to the nuclear envelope, Nature, vol.441, pp.770-773, 2006. ,
URL : https://hal.archives-ouvertes.fr/pasteur-00207343
Chromatin extrusion explains key features of loop and domain formation in wild-type and engineered genomes, Proc Natl Acad Sci USA, vol.112, issue.47, pp.6456-6465, 2015. ,
Formation of chromosomal domains by loop extrusion, bioRxiv, p.24620, 2015. ,
Coarse-graining diblock copolymer solutions: a macromolecular version of the Widom-Rowlinson model, Mol Phys, vol.103, pp.3045-3054, 2005. ,
URL : https://hal.archives-ouvertes.fr/hal-01907076
Versatile design and synthesis platform for visualizing genomes with oligopaint FISH probes, PNAS, vol.109, pp.21301-21306, 2012. ,
Singe-molecule super-resolution imaging of chromosomes and in situ haplotype visualization using oligopaint FISH probes, Nature Communications, vol.6, pp.7147-7160, 2015. ,
, Biophys J, vol.106, issue.9, p.24806919, 2014.
Chromosome positioning from activity-based segregation, Nucleic Acids Res, vol.42, issue.7, pp.4145-4159, 2014. ,
Spatially confined polymer chains: implications of chromatin fibre flexibility and peripheral anchoring on telomere-telomere interaction, J Phys-Condes Matter, vol.18, issue.14, pp.245-252, 2006. ,
Chromosome positioning and the clustering of functionally related loci in yeast is driven by chromosomal interactions, NucleusAustin, vol.3, issue.4, pp.370-383, 2012. ,
A Predictive Computational Model of the Dynamic 3D Interphase Yeast Nucleus, Curr Biol, vol.22, issue.20, p.22940469, 2012. ,
URL : https://hal.archives-ouvertes.fr/pasteur-01420017
Dynamics of entangled linear polymer melts: A molecular-dynamics simulation, J Chem Phys, vol.92, pp.5057-5086, 1990. ,
Fast parallel algorithms for short range molecular dynamics, J Comp Phys, vol.117, pp.1-19, 1995. ,
How Two Meters of DNA Fit into a Cell Nucleus: Polymer Models with Topological Constraints and Experimental Data, Polym Sci Ser C, vol.54, pp.1-10, 2012. ,
From a melt of rings to chromosome territories: the role of topological constraints in genome folding, Rep Prog Phys, vol.77, issue.2, p.24472896, 2014. ,
Territorial polymers, Phys Today, vol.62, p.72, 2009. ,
The Theory of Polymer Dynamics, 1986. ,
Polymer Physics, 2003. ,