Towards Realistic Modelling of Nucleosome Organization Inside Functional Chromatin Domains

Informazioni relative al progetto

InsideChromatin

ID dell’accordo di sovvenzione: 803326

DOI

10.3030/803326

Progetto chiuso

Data della firma CE 17 Ottobre 2018

Data di avvio 1 Aprile 2019

Data di completamento 31 Marzo 2025

Finanziato da

• EXCELLENT SCIENCE - European Research Council (ERC)

Costo totale

€ 1 490 380,00

Contributo UE

€ 1 490 380,00

Coordinato da

THE CHANCELLOR MASTERS AND SCHOLARS OF THE UNIVERSITY OF CAMBRIDGE
United Kingdom

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I link ai risultati e alle pubblicazioni dei progetti del 7° PQ, così come i link ad alcuni tipi di risultati specifici come dataset e software, sono recuperati dinamicamente da .OpenAIRE .

Pubblicazioni

Non-peer reviewed articles (1)

Reentrant liquid condensate phase of proteins is stabilized by hydrophobic and non-ionic interactions

Autori: Georg Krainer, Timothy J. Welsh, Jerelle A. Joseph, Jorge R. Espinosa, Sina Wittmann, Ella de Csilléry, Akshay Sridhar, Zenon Toprakcioglu, Giedre Gudiškytė, Magdalena A. Czekalska, William E. Arter, Peter St George-Hyslop, Anthony A. Hyman, Rosana Collepardo-Guevara, Simon Alberti, Tuomas P.J. Knowles
Pubblicato in: Nature Communications, Numero 12, 2021, Pagina/e 1085, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-021-21181-9

Peer reviewed articles (13)

Nucleosome plasticity is a critical element of chromatin liquid–liquid phase separation and multivalent nucleosome interactions

Autori: Stephen E Farr, Esmae J Woods, Jerelle A Joseph, Adiran Garaizar, Rosana Collepardo-Guevara
Pubblicato in: Nature Communications, Numero 12, 2021, Pagina/e 2883, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-021-23090-3

Valency and Binding Affinity Variations Can Regulate the Multilayered Organization of Protein Condensates with Many Components

Autori: Ignacio Sanchez-Burgos, Jorge R. Espinosa, Jerelle A. Joseph, Rosana Collepardo-Guevara
Pubblicato in: Biomolecules, Numero 11, 2021, Pagina/e 278, ISSN 2218-273X
Editore: MDPI
DOI: 10.3390/biom11020278

Targeted modulation of protein liquid-liquid phase separation by evolution of amino-acid sequence

Autori: Simon M Lichtinger, Adiran Garaizar, Rosana Collepardo-Guevara, Aleks Reinhardt
Pubblicato in: Plos Computational Biology, Numero 17(8), 2021, Pagina/e e1009328, ISSN 1553-734X
Editore: Public Library of Science
DOI: 10.1371/journal.pcbi.1009328

Physics-driven coarse-grained model for biomolecular phase separation with near-quantitative accuracy

Autori: Jerelle A. Joseph, Aleks Reinhardt, Anne Aguirre, Pin Yu Chew, Kieran O. Russell, Jorge R. Espinosa, Adiran Garaizar, Rosana Collepardo-Guevara
Pubblicato in: Nature Computational Science, Numero 1, 2021, Pagina/e 732–743, ISSN 2662-8457
Editore: Nature Publishing Group
DOI: 10.1038/s43588-021-00155-3

Size conservation emerges spontaneously in biomolecular condensates formed by scaffolds and surfactant clients

Autori: Ignacio Sanchez-Burgos, Jerelle A. Joseph, Rosana Collepardo-Guevara, Jorge R. Espinosa
Pubblicato in: Scientific Reports, Numero 11, 2021, Pagina/e 15241, ISSN 2045-2322
Editore: Nature Publishing Group
DOI: 10.1038/s41598-021-94309-y

Liquid-like chromatin in the cell: What can we learn from imaging and computational modeling?

Autori: Yuji Itoh, Esmae J. Woods, Katsuhiko Minami, Kazuhiro Maeshima, Rosana Collepardo-Guevara
Pubblicato in: Current Opinion in Structural Biology, Numero 71, 2021, Pagina/e 123-135, ISSN 0959-440X
Editore: Elsevier BV
DOI: 10.1016/j.sbi.2021.06.004

Protein disorder-to-order transition enhances the nucleosome-binding affinity of H1

Autori: Akshay Sridhar, Modesto Orozco, Rosana Collepardo-Guevara
Pubblicato in: Nucleic Acids Research, Numero 48/10, 2020, Pagina/e 5318–5331, ISSN 0305-1048
Editore: Oxford University Press
DOI: 10.1093/nar/gkaa285

Liquid network connectivity regulates the stability and composition of biomolecular condensates with many components

Autori: Jorge R. Espinosa, Jerelle A. Joseph, Ignacio Sanchez-Burgos, Adiran Garaizar, Daan Frenkel, Rosana Collepardo-Guevara
Pubblicato in: Proceedings of the National Academy of Sciences, Numero 117/24, 2020, Pagina/e 13238-13247, ISSN 0027-8424
Editore: National Academy of Sciences
DOI: 10.1073/pnas.1917569117

Expansion of Intrinsically Disordered Proteins Increases the Range of Stability of Liquid–Liquid Phase Separation

Autori: Adiran Garaizar, Ignacio Sanchez-Burgos, Rosana Collepardo-Guevara, Jorge R. Espinosa
Pubblicato in: Molecules, Numero 25/20, 2020, Pagina/e 4705, ISSN 1420-3049
Editore: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/molecules25204705

Emergence of chromatin hierarchical loops from protein disorder and nucleosome asymmetry

Autori: Akshay Sridhar, Stephen E. Farr, Guillem Portella, Tamar Schlick, Modesto Orozco, Rosana Collepardo-Guevara
Pubblicato in: Proceedings of the National Academy of Sciences, Numero 117/13, 2020, Pagina/e 7216-7224, ISSN 0027-8424
Editore: National Academy of Sciences
DOI: 10.1073/pnas.1910044117

DNA binds to a specific site of the adhesive blood-protein von Willebrand factor guided by electrostatic interactions

Autori: Angélica Sandoval-Pérez, Ricarda M L Berger, Adiran Garaizar, Stephen E Farr, Maria A Brehm, Gesa König, Stefan W Schneider, Rosana Collepardo-Guevara, Volker Huck, Joachim O Rädler, Camilo Aponte-Santamaría
Pubblicato in: Nucleic Acids Research, Numero 48/13, 2020, Pagina/e 7333-7344, ISSN 0305-1048
Editore: Oxford University Press
DOI: 10.1093/nar/gkaa466

Thermodynamics and kinetics of phase separation of protein-RNA mixtures by a minimal model

Autori: Jerelle A Joseph, Jorge R Espinosa, Ignacio Sanchez-Burgos, Adiran Garaizar, Daan Frenkel, Rosana Collepardo-Guevara
Pubblicato in: Biophysical Journal, Numero 120/7, 2021, Pagina/e 1219-1230, ISSN 0006-3495
Editore: Biophysical Society
DOI: 10.1016/j.bpj.2021.01.031

Breakdown of the law of rectilinear diameter and related surprises in the liquid-vapor coexistence in systems of patchy particles

Autori: Jorge R. Espinosa, Adiran Garaizar, Carlos Vega, Daan Frenkel, Rosana Collepardo-Guevara
Pubblicato in: The Journal of Chemical Physics, Numero 150/22, 2019, Pagina/e 224510, ISSN 0021-9606
Editore: American Institute of Physics
DOI: 10.1063/1.5098551

Other (6)

Intermolecular reorganisation of single-component condensates during ageing promotes multiphase architectures

Autori: Adiran Garaizar, Jorge R Espinosa, Jerelle A Joseph, Georg Krainer, Yi Shen, Tuomas PJ Knowles, Rosana Collepardo-Guevara
Pubblicato in: bioRxiv, 2021
Editore: Cold Spring Harbour
DOI: 10.1101/2021.10.09.463670

The chromatin regulator HMGA1a undergoes phase separation in the nucleus

Autori: Hongjia Zhu, Masako Narita, Jerelle A. Joseph, Georg Krainer, Will Arter, Kadi L. Saar, Niklas Ermann, Jorge R. Espinosa, Yi Shen, Masami Ando Kuri, Runzhang Qi, Yufan Xu, Rosana Collepardo-Guevara, Masashi Narita, Tuomas P. J. Knowles
Pubblicato in: bioRxiv, 2021
Editore: Cold Spring Harbor
DOI: 10.1101/2021.10.14.464384

Oligonucleotides can act as superscaffolds that enhance liquid-liquid phase separation of intracellular mixtures

Autori: Jerelle A. Joseph, Jorge R. Espinosa, Ignacio Sanchez-Burgos, Adiran Garaizar, Daan Frenkel, Rosana Collepardo-Guevara
Pubblicato in: bioRxiv, 2020
Editore: Cold Spring Harbor Laboratory
DOI: 10.1101/2020.01.24.916858

Kinetic interplay between droplet maturation and coalescence modulates shape of aged protein condensates

Autori: Adiran Garaizar, Jorge R. Espinosa, Jerelle A. Joseph, Rosana Collepardo-Guevara
Pubblicato in: bioRxiv, 2021
Editore: Cold Spring Harbor
DOI: 10.1101/2021.10.07.463530

Surface electrostatics govern the emulsion stability of biomolecular condensates

Autori: Timothy J. Welsh, Georg Krainer, Jorge R. Espinosa, Jerelle A. Joseph, Akshay Sridhar, Marcus Jahnel, William E. Arter, Kadi L. Saar, Simon Alberti, Rosana Collepardo-Guevara, Tuomas P.J. Knowles
Pubblicato in: bioRxiv, 2020
Editore: Cold Spring Harbor Labortory
DOI: 10.1101/2020.04.20.047910

RNA length has a non-trivial effect in the stability of biomolecular condensates formed by RNA-binding proteins

Autori: Ignacio Sanchez-Burgos, Jorge R Espinosa, Jerelle A Joseph, Rosana Collepardo-Guevara
Pubblicato in: bioRxiv, 2021
Editore: Cold Spring Harbour
DOI: 10.1101/2021.10.07.463486