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Production scientifique
(474) Production(s) de l'année 2018
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Modélisation de la ségrégation et du positionnement
du génome bactérien
Auteur(s): Parmeggiani A.
(Autres publications)
, 2018
Résumé: Sur la description de la recherche effectuée sur la ségrégation et le positionnement de l'ADN bactérien.
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Matériau de répartition de champ électrique, son procédé de fabrication et dispositif comprenant un tel matériau
Auteur(s): Metz R., Hassanzadeh M.
Brevet: #EP 3 312 226 A1, (2018)
Ref HAL: hal-01940130_v1
Exporter : BibTex | endNote
Résumé: L'invention se rapporte à un matériau de répartition de champ électrique obtenu à partir dune formulation comprenant une matrice polymérique et une charge ou un mélange de charges conférant audit matériau une résistance électrique non linéaire.
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Looping and Clustering: a statistical physics approach to protein-DNA complexes in bacteria
Auteur(s): Walter J.-C., Walliser N.-O., David G., Dorignac J., Geniet F., Palmeri J., Parmeggiani A., Wingreen Ned S., Broedersz Chase P.
(Affiches/Poster)
EMBO | EMBL Symposium: Cellular Mechanisms Driven by Liquid Phase Separation (Heidelberg, DE), 2018-05-14
Ref HAL: hal-01939915_v1
Exporter : BibTex | endNote
Résumé: The DNA shows a high degree of spatial and dynamical organization over a broad range of length scales. It interacts with different populations of proteins and can form protein-DNA complexes that underlie various biological processes, including chromosome segregation. A prominent example is the large ParB-DNA complex, an essential component of a widely spread mechanism for DNA segregation in bacteria. Recent studies suggest that DNA-bound ParB proteins interact with each other and condense into large clusters with multiple extruding DNA-loops.In my talk, I present the Looping and Clustering model [1], a simple statistical physics approach to describe how proteins assemble into a protein-DNA cluster with multiple loops. Our analytic model predicts binding profiles of ParB proteins in good agreement with data from high precision ChIP-sequencing – a biochemical technique to analyze the interaction between DNA and proteins at the level of the genome. The Looping and Clustering framework provides a quantitative tool that could be exploited to interpret further experimental results of ParB-like protein complexes and gain some new insights into the organization of DNA.
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Looping and Clustering: a statistical physics approach to protein-DNA complexes in bacteria
Auteur(s): Walliser N.-O.
(Séminaires)
L2C, Université de Montpellier (Montpellier, FR), 2018-02-15 |
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Looping and Clustering: a statistical physics approach to protein-DNA complexes in bacteria
Auteur(s): Walliser N.-O.
Conference: Chromatin Meets South (Montpellier, FR, 2018-06-12)
Ref HAL: hal-01939901_v1
Exporter : BibTex | endNote
Résumé: The DNA shows a high degree of spatial and dynamical organization over a broad range of length scales. It interacts with different populations of proteins and can form protein-DNA complexes that underlie various biological processes, including chromosome segregation. A prominent example is the large ParB-DNA complex, an essential component of a widely spread mechanism for DNA segregation in bacteria. Recent studies suggest that DNA-bound ParB proteins interact with each other and condense into large clusters with multiple extruding DNA-loops. In my talk, I present the Looping and Clustering model, a simple statistical physics approach to describe how proteins assemble into a protein-DNA cluster with multiple loops. Our analytic model predicts binding profiles of ParB proteins in good agreement with data from high precision ChIP-sequencing – a biochemical technique to analyze the interaction between DNA and proteins at the level of the genome. The Looping and Clustering framework provides a quantitative tool that could be exploited to interpret further experimental results of ParB-like protein complexes and gain some new insights into the organization of DNA.
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Looping and Clustering model for the organization of protein-DNA complexes on the bacterial genome
Auteur(s): Walliser N.-O.
Conference: Réunion annuelle du GdR ADN (Millau, FR, 2018-04-09)
Ref HAL: hal-01939895_v1
Exporter : BibTex | endNote
Résumé: The bacterial genome is organized by a variety of associated proteins inside a structure called the nucleoid. These proteins can form complexes on DNA that play a central role in various biological processes, including chromosome segregation. A prominent example is the large ParB-DNA complex, which forms an essential component of the segregation machinery in many bacteria. ChIP-Seq experiments show that ParB proteins localize around centromere-like parS sites on the DNA to which ParB binds specifically, and spreads from there over large sections of the chromosome. Recent theoretical and experimental studies suggest that DNA-bound ParB proteins can interact with each other to condense into a coherent 3D complex on the DNA. However, the structural organization of this protein-DNA complex remains unclear, and a predictive quantitative theory for the distribution of ParB proteins on DNA is lacking. Here, we propose the Looping and Clustering (LC) model, which employs a statistical physics approach to describe protein-DNA complexes. The LC model accounts for the extrusion of DNA loops from a cluster of interacting DNA-bound proteins that is organized around a single high-affinity binding site. Conceptually, the structure of the protein-DNA complex is determined by a competition between attractive protein interactions and the configurational and loop entropy of this protein-DNA cluster. Indeed, we show that the protein interaction strength determines the "tightness" of the loopy protein-DNA complex. Thus, our model provides a theoretical framework to quantitatively compute the binding profiles of ParB-like proteins around a cognate parS binding site.
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DNA-loops and the organization of protein-DNA complexes in bacteria
Auteur(s): Walliser N.-O.
Conference: Journées de Physique Statistique 2018 (Paris, FR, 2018-01-25)
Ref HAL: hal-01939889_v1
Exporter : BibTex | endNote
Résumé: The DNA shows a high degree of spatial and dynamical organization over a broad range of length scales. It interacts with different populations of proteins and can form protein-DNA complexes that underlie various biological processes, including chromosome segregation. A prominent example is the large ParB-DNA complex, an essential component of a widely spread mechanism for DNA segregation in bacteria. Recent studies suggest that DNA-bound ParB proteins interact with each other and condense into large clusters with multiple extruding DNA-loops. In my talk, I present the Looping and Clustering model, a simple statistical physics approach to describe how proteins assemble into a protein-DNA cluster with multiple loops. Our analytic model predicts binding profiles of ParB proteins in good agreement with data from high precision ChIP-sequencing – a biochemical technique to analyze the interaction between DNA and proteins at the level of the genome. The Looping and Clustering framework provides a quantitative tool that could be exploited to interpret further experimental results of ParB-like protein complexes and gain some new insights into the organization of DNA.
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