Effective model of loop extrusion predicts chromosomal domains.
- Crippa M Department of Physics, Università degli Studi di Milano, via Celoria 16, 20133 Milano, Italy and Department of Applied Science and Technology, Politecnico di Torino, Corso Duca degli Abruzzi 24, 10129 Torino, Italy.
- Zhan Y Friedrich Miescher Institute for Biomedical Research, Maulbeerstrasse 66, 4058 Basel, Switzerland.
- Tiana G Department of Physics and Center for Complexity and Biosystems, Università degli Studi di Milano and INFN, via Celoria 16, 20133 Milano, Italy.
- 2020-10-20
Published in:
- Physical review. E. - 2020
English
An active loop-extrusion mechanism is regarded as the main out-of-equilibrium mechanism responsible for the structuring of megabase-sized domains in chromosomes. We developed a model to study the dynamics of the chromosome fiber by solving the kinetic equations associated with the motion of the extruder. By averaging out the position of the extruder along the chain, we build an effective equilibrium model capable of reproducing experimental contact maps based solely on the positions of extrusion-blocking proteins. We assessed the quality of the effective model using numerical simulations of chromosomal segments and comparing the results with explicit-extruder models and experimental data.
- Language
-
- English
- Open access status
- green
- Identifiers
-
- DOI 10.1103/PhysRevE.102.032414
- PMID 33076010
- Persistent URL
- https://sonar.ch/global/documents/136830
Statistics
Document views: 38
File downloads:
- Full-text: 0