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Jakob Ruess

Moment-based inference predicts bimodality in transient gene expression
2012 · Christoph Zechner, Jakob Ruess, et al. · Proceedings of the National Academy of Sciences · 221
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Shaping bacterial population behavior through computer-interfaced control of individual cells
2017 · Remy Chait, Jakob Ruess, et al. · Nature Communications · 105
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Designing experiments to understand the variability in biochemical reaction networks
2013 · Jakob Ruess, Andreas Milias-Argeitis, et al. · Journal of The Royal Society Interface · 72
Iterative experiment design guides the characterization of a light-inducible gene expression circuit
2015 · Jakob Ruess, Francesca Parise, et al. · Proceedings of the National Academy of Sciences · 64
A light tunable differentiation system for the creation and control of consortia in yeast
2021 · Chetan Aditya, François Bertaux, et al. · Nature Communications · 52
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Enabling reactive microscopy with MicroMator
2022 · Zachary R. Fox, Steven Fletcher, et al. · Nature Communications · 49
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Moment estimation for chemically reacting systems by extended Kalman filtering
2011 · J. Ruess, A. Milias-Argeitis, et al. · The Journal of Chemical Physics · 37
To quarantine, or not to quarantine: A theoretical framework for disease control via contact tracing
2020 · Davin Lunz, Gregory Batt, et al. · Epidemics · 35
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Estimating information in time-varying signals
2019 · Sarah Anhala Cepeda-Humerez, Jakob Ruess, et al. · PLoS Computational Biology · 32
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Moment-Based Methods for Parameter Inference and Experiment Design for Stochastic Biochemical Reaction Networks
2015 · Jakob Ruess, John Lygeros · ACM Transactions on Modeling and Computer Simulation · 30
Using single-cell models to predict the functionality of synthetic circuits at the population scale
2022 · Chetan Aditya, François Bertaux, et al. · Proceedings of the National Academy of Sciences · 22
Beyond the chemical master equation: Stochastic chemical kinetics coupled with auxiliary processes
2021 · Davin Lunz, Gregory Batt, et al. · PLoS Computational Biology · 19
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Identifying stochastic biochemical networks from single-cell population experiments: A comparison of approaches based on the Fisher information
2013 · Jakob Ruess, John Lygeros · IEEE Conference on Decision and Control (CDC) · 14
Adaptive moment closure for parameter inference of biochemical reaction networks
2016 · Christian Schilling, Sergiy Bogomolov, et al. · Biosystems · 11
Bayesian inference for stochastic individual-based models of ecological systems: a pest control simulation study
2015 · Francesca Parise, John Lygeros, et al. · Frontiers in Environmental Science · 11
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Adaptive Moment Closure for Parameter Inference of Biochemical Reaction Networks
2015 · Sergiy Bogomolov, Thomas A. Henzinger, et al. · Lecture notes in computer science · 11
External control of microbial populations for bioproduction: A modeling and optimization viewpoint
2021 · François Bertaux, Jakob Ruess, et al. · Current Opinion in Systems Biology · 9
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MicroMator: Open and Flexible Software for Reactive Microscopy
2021 · Zachary R Fox, Steven Fletcher, et al. · bioRxiv (Cold Spring Harbor Laboratory) · 9
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Molecular noise of innate immunity shapes bacteria-phage ecologies
2019 · Jakob Ruess, Maroš Pleška, et al. · PLoS Computational Biology · 9
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Stochastic chemical kinetics of cell fate decision systems: From single cells to populations and back
2023 · Jakob Ruess, Guillaume Ballif, et al. · The Journal of Chemical Physics · 7
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Optimal control of bioproduction in the presence of population heterogeneity
2023 · Davin Lunz, J. Frédéric Bonnans, et al. · Journal of Mathematical Biology · 6
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Can optimal experimental design serve as a tool to characterize highly non-linear synthetic circuits?
2019 · Maxim Kryukov, Arthur Carcano, et al. · European Control Conference (ECC) · 6
Approximating the solution of the chemical master equation by combining finite state projection and stochastic simulation
2013 · Aron Hjartarson, Jakob Ruess, et al. · IEEE Conference on Decision and Control (CDC) · 6
Revisiting moment-closure methods with heterogeneous multiscale population models
2022 · Davin Lunz, J. Frédéric Bonnans, et al. · Mathematical Biosciences · 5
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Parameter inference for stochastic biochemical models from perturbation experiments parallelised at the single cell level
2022 · Anđela Davidović, Remy Chait, et al. · PLoS Computational Biology · 5
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Works count: 49
Citation count: 864
H-index: 13
I10-index: 16
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