Towards Realistic Modelling of Nucleosome Organization Inside Functional Chromatin Domains

Project Information

InsideChromatin

Grant agreement ID: 803326

DOI

10.3030/803326

Project closed

EC signature date 17 October 2018

Start date 1 April 2019

End date 31 March 2025

Funded under

• EXCELLENT SCIENCE - European Research Council (ERC)

Total cost

€ 1 490 380,00

EU contribution

€ 1 490 380,00

Coordinated by

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

CORDIS provides links to public deliverables and publications of HORIZON projects.

Links to deliverables and publications from FP7 projects, as well as links to some specific result types such as dataset and software, are dynamically retrieved from OpenAIRE .

Publications

Non-peer reviewed articles (1)

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

Author(s): 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
Published in: Nature Communications, Issue 12, 2021, Page(s) 1085, ISSN 2041-1723
Publisher: 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

Author(s): Stephen E Farr, Esmae J Woods, Jerelle A Joseph, Adiran Garaizar, Rosana Collepardo-Guevara
Published in: Nature Communications, Issue 12, 2021, Page(s) 2883, ISSN 2041-1723
Publisher: 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

Author(s): Ignacio Sanchez-Burgos, Jorge R. Espinosa, Jerelle A. Joseph, Rosana Collepardo-Guevara
Published in: Biomolecules, Issue 11, 2021, Page(s) 278, ISSN 2218-273X
Publisher: MDPI
DOI: 10.3390/biom11020278

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

Author(s): Simon M Lichtinger, Adiran Garaizar, Rosana Collepardo-Guevara, Aleks Reinhardt
Published in: Plos Computational Biology, Issue 17(8), 2021, Page(s) e1009328, ISSN 1553-734X
Publisher: Public Library of Science
DOI: 10.1371/journal.pcbi.1009328

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

Author(s): Jerelle A. Joseph, Aleks Reinhardt, Anne Aguirre, Pin Yu Chew, Kieran O. Russell, Jorge R. Espinosa, Adiran Garaizar, Rosana Collepardo-Guevara
Published in: Nature Computational Science, Issue 1, 2021, Page(s) 732–743, ISSN 2662-8457
Publisher: Nature Publishing Group
DOI: 10.1038/s43588-021-00155-3

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

Author(s): Ignacio Sanchez-Burgos, Jerelle A. Joseph, Rosana Collepardo-Guevara, Jorge R. Espinosa
Published in: Scientific Reports, Issue 11, 2021, Page(s) 15241, ISSN 2045-2322
Publisher: 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?

Author(s): Yuji Itoh, Esmae J. Woods, Katsuhiko Minami, Kazuhiro Maeshima, Rosana Collepardo-Guevara
Published in: Current Opinion in Structural Biology, Issue 71, 2021, Page(s) 123-135, ISSN 0959-440X
Publisher: Elsevier BV
DOI: 10.1016/j.sbi.2021.06.004

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

Author(s): Akshay Sridhar, Modesto Orozco, Rosana Collepardo-Guevara
Published in: Nucleic Acids Research, Issue 48/10, 2020, Page(s) 5318–5331, ISSN 0305-1048
Publisher: Oxford University Press
DOI: 10.1093/nar/gkaa285

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

Author(s): Jorge R. Espinosa, Jerelle A. Joseph, Ignacio Sanchez-Burgos, Adiran Garaizar, Daan Frenkel, Rosana Collepardo-Guevara
Published in: Proceedings of the National Academy of Sciences, Issue 117/24, 2020, Page(s) 13238-13247, ISSN 0027-8424
Publisher: National Academy of Sciences
DOI: 10.1073/pnas.1917569117

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

Author(s): Adiran Garaizar, Ignacio Sanchez-Burgos, Rosana Collepardo-Guevara, Jorge R. Espinosa
Published in: Molecules, Issue 25/20, 2020, Page(s) 4705, ISSN 1420-3049
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/molecules25204705

Emergence of chromatin hierarchical loops from protein disorder and nucleosome asymmetry

Author(s): Akshay Sridhar, Stephen E. Farr, Guillem Portella, Tamar Schlick, Modesto Orozco, Rosana Collepardo-Guevara
Published in: Proceedings of the National Academy of Sciences, Issue 117/13, 2020, Page(s) 7216-7224, ISSN 0027-8424
Publisher: 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

Author(s): 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
Published in: Nucleic Acids Research, Issue 48/13, 2020, Page(s) 7333-7344, ISSN 0305-1048
Publisher: Oxford University Press
DOI: 10.1093/nar/gkaa466

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

Author(s): Jerelle A Joseph, Jorge R Espinosa, Ignacio Sanchez-Burgos, Adiran Garaizar, Daan Frenkel, Rosana Collepardo-Guevara
Published in: Biophysical Journal, Issue 120/7, 2021, Page(s) 1219-1230, ISSN 0006-3495
Publisher: 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

Author(s): Jorge R. Espinosa, Adiran Garaizar, Carlos Vega, Daan Frenkel, Rosana Collepardo-Guevara
Published in: The Journal of Chemical Physics, Issue 150/22, 2019, Page(s) 224510, ISSN 0021-9606
Publisher: American Institute of Physics
DOI: 10.1063/1.5098551

Other (6)

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

Author(s): Adiran Garaizar, Jorge R Espinosa, Jerelle A Joseph, Georg Krainer, Yi Shen, Tuomas PJ Knowles, Rosana Collepardo-Guevara
Published in: bioRxiv, 2021
Publisher: Cold Spring Harbour
DOI: 10.1101/2021.10.09.463670

The chromatin regulator HMGA1a undergoes phase separation in the nucleus

Author(s): 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
Published in: bioRxiv, 2021
Publisher: Cold Spring Harbor
DOI: 10.1101/2021.10.14.464384

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

Author(s): Jerelle A. Joseph, Jorge R. Espinosa, Ignacio Sanchez-Burgos, Adiran Garaizar, Daan Frenkel, Rosana Collepardo-Guevara
Published in: bioRxiv, 2020
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2020.01.24.916858

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

Author(s): Adiran Garaizar, Jorge R. Espinosa, Jerelle A. Joseph, Rosana Collepardo-Guevara
Published in: bioRxiv, 2021
Publisher: Cold Spring Harbor
DOI: 10.1101/2021.10.07.463530

Surface electrostatics govern the emulsion stability of biomolecular condensates

Author(s): 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
Published in: bioRxiv, 2020
Publisher: 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

Author(s): Ignacio Sanchez-Burgos, Jorge R Espinosa, Jerelle A Joseph, Rosana Collepardo-Guevara
Published in: bioRxiv, 2021
Publisher: Cold Spring Harbour
DOI: 10.1101/2021.10.07.463486