63 citations · 236 across the 18 of their papers we have counts for
19 papers
Equilibrium cluster statistics of cooperative and anticooperative binding on finite one-dimensional rings
Thomas Alfonsi, Jérôme Dorignac, John Palmeri +1
We study equilibrium clustering in a finite one-dimensional lattice gas of sites with periodic boundary conditions, as a minimal model for adsorption and binding on small ring-…
Chain decay and rates disorder in the totally asymmetric simple exclusion process
Yahaya Ibrahim, Jérôme Dorignac, Fred Geniet +5
We theoretically study the Totally Asymmetric Exclusion Process (TASEP) with quenched jumping rates disorder and finite lifetime chain. TASEP is widely used to model the translatio…
Signature of (anti)cooperativity in the stochastic fluctuations of small systems: application to the bacterial flagellar motor
María-José Franco-Oñate, Andrea Parmeggiani, Jérôme Dorignac +6
The cooperative binding of molecular agents onto a substrate is pervasive in living systems. To study whether a system shows cooperativity, one can rely on a fluctuation analysis o…
Physical modeling of ribosomes along messenger RNA: estimating kinetic parameters from ribosome profiling experiments using a ballistic model
Carole Chevalier, Jérôme Dorignac, Yahaya Ibrahim +9
Gene expression consists in the synthesis of proteins from the information encoded on DNA. One of the two main steps of gene expression is the translation of messenger RNA (mRNA) i…
Modelling the effect of ribosome mobility on the rate of protein synthesis
Olivier Dauloudet, Izaak Neri, Jean-Charles Walter +3
Translation is one of the main steps in the synthesis of proteins. It consists of ribosomes that translate sequences of nucleotides encoded on mRNA into polypeptide sequences of am…
Modeling supercoiled DNA interacting with an anchored cluster of proteins: towards a quantitative estimation of chromosomal DNA supercoiling
Jean-Charles Walter, Thibaut Lepage, Jérôme Dorignac +5
We investigate the measurement of DNA supercoiling density () along chromosomes using interaction frequencies between DNA and DNA-anchored clusters of proteins. Specifically, we…