103 citations · 138 across the 6 of their papers we have counts for
6 papers
Quantitative ergodicity for gene regulatory networks with transcriptional bursting
Mathilde Gaillard, Ulysse Herbach
We study the long-term behavior of two piecewise-deterministic Markov processes used to model stochastic gene regulatory networks with bursting dynamics. Under regularity assumptio…
Efficient stochastic simulation of gene regulatory networks using hybrid models of transcriptional bursting
Mathilde Gaillard, Ulysse Herbach
Single-cell data reveal the presence of biological stochasticity between cells of identical genome and environment, in particular highlighting the transcriptional bursting phenomen…
Harissa: stochastic simulation and inference of gene regulatory networks based on transcriptional bursting
Ulysse Herbach
Gene regulatory networks, as a powerful abstraction for describing complex biological interactions between genes through their expression products within a cell, are often regarded…
Gene regulatory network inference from single-cell data using a self-consistent proteomic field
Ulysse Herbach
The well-known issue of reconstructing regulatory networks from gene expression measurements has been somewhat disrupted by the emergence and rapid development of single-cell data.…
Stochastic gene expression with a multistate promoter: breaking down exact distributions
Ulysse Herbach
We consider a stochastic model of gene expression in which transcription depends on a multistate promoter, including the famous two-state model and refractory promoters as special…
Inferring gene regulatory networks from single-cell data: a mechanistic approach
Ulysse Herbach, Arnaud Bonnaffoux, Thibault Espinasse +1
The recent development of single-cell transcriptomics has enabled gene expression to be measured in individual cells instead of being population-averaged. Despite this considerable…