Predictive Polymer Models for 3D Chromosome Organization

Michael Chiang; Giada Forte; Nick Gilbert; Davide Marenduzzo; Chris A Brackley

doi:10.1007/978-1-0716-1390-0_14

Predictive Polymer Models for 3D Chromosome Organization

Methods Mol Biol. 2022:2301:267-291. doi: 10.1007/978-1-0716-1390-0_14.

Authors

Michael Chiang¹, Giada Forte^{1

2}, Nick Gilbert², Davide Marenduzzo³, Chris A Brackley¹

Affiliations

¹ SUPA, School of Physics and Astronomy, University of Edinburgh, Edinburgh, UK.
² MRC Human Genetics Unit, MRC Institute of Genetics and Molecular Medicine, University of Edinburgh, Western General Hospital, Edinburgh, UK.
³ SUPA, School of Physics and Astronomy, University of Edinburgh, Edinburgh, UK. dmarendu@ph.ed.ac.uk.

PMID: 34415541
DOI: 10.1007/978-1-0716-1390-0_14

Abstract

Polymer simulations and predictive mechanistic modelling are increasingly used in conjunction with experiments to study the organization of eukaryotic chromosomes. Here we review some of the most prevalent models for mechanisms which drive different aspects of chromosome organization, as well as a recent simulation scheme which combines several of these mechanisms into a single predictive model. We give some practical details of the modelling approach, as well as review some of the key results obtained by these and similar models in the last few years.

Keywords: Bridging-induced attraction; Chromosome organization; HiP-HoP model; Polymer simulation.

Publication types

Research Support, Non-U.S. Gov't
Review

MeSH terms

Chromosomes* / genetics
Computer Simulation
Eukaryota
Polymers

Substances

Polymers