Publications by authors named "Ramon Grima"

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Joint Distribution of Nuclear and Cytoplasmic mRNA Levels in Stochastic Models of Gene Expression: Analytical Results and Parameter Inference.
Yiling Wang, Juraj Szavits-Nossan, Zhixing Cao, Ramon Grima

Phys Rev Lett· August 2025

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Cell-cycle dependence of bursty gene expression: insights from fitting mechanistic models to single-cell RNA-seq data.
Augustinas Sukys, Ramon Grima

Nucleic Acids Res· April 2025

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Transient power-law behaviour following induction distinguishes between competing models of stochastic gene expression.
Andrew G Nicoll, Juraj Szavits-Nossan, Martin R Evans, Ramon Grima

Nat Commun· March 2025

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Licensing and niche competition in spermatogenesis: mathematical models suggest complementary regulation of tissue maintenance.
Rodrigo García-Tejera, Jing-Yi Tian, Marc Amoyel, Ramon Grima, Linus J Schumacher

Development· January 2025

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Deterministic patterns in single-cell transcriptomic data.
Zhixing Cao, Yiling Wang, Ramon Grima

NPJ Syst Biol Appl· January 2025

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Efficient and scalable prediction of stochastic reaction-diffusion processes using graph neural networks.
Zhixing Cao, Rui Chen, Libin Xu, Xinyi Zhou, Xiaoming Fu, Ramon Grima

Math Biosci· September 2024

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Holimap: an accurate and efficient method for solving stochastic gene network dynamics.
Chen Jia, Ramon Grima

Nat Commun· August 2024

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Analysis of a detailed multi-stage model of stochastic gene expression using queueing theory and model reduction.
Muhan Ma, Juraj Szavits-Nossan, Abhyudai Singh, Ramon Grima

Math Biosci· July 2024

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A stochastic vs deterministic perspective on the timing of cellular events.
Lucy Ham, Megan A Coomer, Kaan Öcal, Ramon Grima, Michael P H Stumpf

Nat Commun· June 2024

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Solving stochastic gene-expression models using queueing theory: A tutorial review.
Juraj Szavits-Nossan, Ramon Grima

Biophys J· May 2024

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Solving the time-dependent protein distributions for autoregulated bursty gene expression using spectral decomposition.
Bingjie Wu, James Holehouse, Ramon Grima, Chen Jia

J Chem Phys· February 2024

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Quantifying and correcting bias in transcriptional parameter inference from single-cell data.
Ramon Grima, Pierre-Marie Esmenjaud

Biophys J· January 2024

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Exact solution of a three-stage model of stochastic gene expression including cell-cycle dynamics.
Yiling Wang, Zhenhua Yu, Ramon Grima, Zhixing Cao

J Chem Phys· December 2023

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Genome-wide single-molecule analysis of long-read DNA methylation reveals heterogeneous patterns at heterochromatin that reflect nucleosome organisation.
Lyndsay Kerr, Ioannis Kafetzopoulos, Ramon Grima, Duncan Sproul

PLoS Genet· October 2023

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Uncovering the effect of RNA polymerase steric interactions on gene expression noise: Analytical distributions of nascent and mature RNA numbers.
Juraj Szavits-Nossan, Ramon Grima

Phys Rev E· September 2023

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The minimal intrinsic stochasticity of constitutively expressed eukaryotic genes is sub-Poissonian.
Douglas E Weidemann, James Holehouse, Abhyudai Singh, Ramon Grima, Silke Hauf

Sci Adv· August 2023

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The minimal intrinsic stochasticity of constitutively expressed eukaryotic genes is sub-Poissonian.
Douglas E Weidemann, Abhyudai Singh, Ramon Grima, Silke Hauf

bioRxiv· March 2023

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Model reduction for the Chemical Master Equation: An information-theoretic approach.
Kaan Öcal, Guido Sanguinetti, Ramon Grima

J Chem Phys· March 2023

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Coupling gene expression dynamics to cell size dynamics and cell cycle events: Exact and approximate solutions of the extended telegraph model.
Chen Jia, Ramon Grima

iScience· January 2023

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Concentration fluctuations in growing and dividing cells: Insights into the emergence of concentration homeostasis.
Chen Jia, Abhyudai Singh, Ramon Grima

PLoS Comput Biol· October 2022

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Quantifying how post-transcriptional noise and gene copy number variation bias transcriptional parameter inference from mRNA distributions.
Xiaoming Fu, Heta P Patel, Stefano Coppola, Libin Xu, Zhixing Cao, Ramon Grima

Elife· October 2022

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DelaySSAToolkit.jl: stochastic simulation of reaction systems with time delays in Julia.
Xiaoming Fu, Xinyi Zhou, Dongyang Gu, Zhixing Cao, Ramon Grima

Bioinformatics· September 2022

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Approximating solutions of the Chemical Master equation using neural networks.
Augustinas Sukys, Kaan Öcal, Ramon Grima

iScience· September 2022

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Inference and uncertainty quantification of stochastic gene expression via synthetic models.
Kaan Öcal, Michael U Gutmann, Guido Sanguinetti, Ramon Grima

J R Soc Interface· July 2022

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Modulation of nuclear and cytoplasmic mRNA fluctuations by time-dependent stimuli: Analytical distributions.
Tatiana Filatova, Nikola Popović, Ramon Grima

Math Biosci· May 2022

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