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Structure: Internal structure identifier : 1090800
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Beyond the chemical master equation: stochastic chemical kinetics coupled with auxiliary processes

Davin Lunz , Gregory Batt , Jakob Ruess , Joseph Frédéric Bonnans
PLoS Computational Biology, 2021, ⟨10.1371/journal.pcbi.1009214⟩
Journal articles hal-02991103v2
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Maximizing protein production by keeping cells at optimal secretory stress levels using real-time control approaches

Sebastián Sosa-Carrillo , Henri Galez , Sara Napolitano , François Bertaux , Gregory Batt et al.
2022
Preprints, Working Papers, ... hal-03940186v1
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Parameter inference for stochastic biochemical models from perturbation experiments parallelised at the single cell level

Anđela Davidović , Remy Chait , Gregory Batt , Jakob Ruess
2021
Preprints, Working Papers, ... hal-03544059v1
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Revisiting moment-closure methods with heterogeneous multiscale population models

Davin Lunz , Joseph Frédéric Bonnans , Jakob Ruess
Mathematical Biosciences, 2022, 350, pp.108866. ⟨10.1016/j.mbs.2022.108866⟩
Journal articles hal-03479587v2
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Modelling and optimal control of a two-species bioproducing microbial consortium

Davin Lunz , Joseph Frédéric Bonnans
SIAM Journal on Applied Mathematics, 2023, 83 (1), pp.144-171. ⟨10.1137/22M1476113⟩
Journal articles hal-03479385v2
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Using single-cell models to predict the functionality of synthetic circuits at the population scale

Chetan Aditya , François Bertaux , Gregory Batt , Jakob Ruess
Proceedings of the National Academy of Sciences of the United States of America, 2022, 119 (11), pp.e2114438119. ⟨10.1073/pnas.211443811⟩
Journal articles hal-03544044v2
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Enabling reactive microscopy with MicroMator

Zachary Fox , Steven Fletcher , Achille Fraisse , Chetan Aditya , Sebastián Sosa-Carrillo et al.
Nature Communications, 2022, 13, pp.2199. ⟨10.1038/s41467-022-29888-z⟩
Journal articles hal-03261134v2
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Methods and tools for the optimal design of experiments applied to the efficient characterization of enzyme-mediated escape to antimicrobial treatments

Arthur Carcano
Bioinformatics [q-bio.QM]. Université de Paris, 2021. English. ⟨NNT : ⟩
Theses tel-03612649v1
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A light tunable differentiation system for the creation and control of consortia in yeast

Chetan Aditya , François Bertaux , Gregory Batt , Jakob Ruess
Nature Communications, 2021, 12, pp.5829. ⟨10.1038/s41467-021-26129-7⟩
Journal articles pasteur-03263577v1

External control of microbial populations for bioproduction: A modeling and optimization viewpoint

François Bertaux , Jakob Ruess , Grégory Batt
Current Opinion in Systems Biology, 2021, 28, pp.100394. ⟨10.1016/j.coisb.2021.100394⟩
Journal articles hal-03536479v1
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Optimizing Noisy Complex Systems Liable to Failure

Davin Lunz
SIAM Journal on Applied Mathematics, 2022, 82 (1), pp.25-48. ⟨10.1137/21M1416126⟩
Journal articles hal-03537040v1
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Enhancing bioreactor arrays for automated measurements and reactive control with ReacSight

François Bertaux , Sebastián Sosa Carrillo , Viktoriia Gross , Achille Fraisse , Chetan Aditya et al.
Nature Communications, 2022, 13, pp.3363. ⟨10.1038/s41467-022-31033-9⟩
Journal articles hal-03744485v2
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Optimal control of bioproduction in the presence of population heterogeneity

Davin Lunz , J. Frédéric Bonnans , Jakob Ruess
Journal of Mathematical Biology, 2023, 86 (3), pp.43. ⟨10.1007/s00285-023-01876-x⟩
Journal articles hal-03445175v3
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Development of a light tunable differentiation system for the creation and control of microbial consortia in S. cerevisiae, its single cell characterization for development of predictive models, and application to heterologous expression

Chetan Aditya
Quantitative Methods [q-bio.QM]. Université de Paris, 2021. English. ⟨NNT : ⟩
Theses tel-03612653v1
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Pipeline for the systematic characterization of heterologous protein secretory load to assess bioproduction efficiency

Sebastián Sosa-Carrillo
Quantitative Methods [q-bio.QM]. Université de Paris, 2021. English. ⟨NNT : ⟩
Theses tel-03612661v1
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Parameter inference for stochastic biochemical models from perturbation experiments parallelised at the single cell level

Anđela Davidović , Remy Chait , Gregory Batt , Jakob Ruess
PLoS Computational Biology, 2022, 18 (3), pp.e1009950. ⟨10.1371/journal.pcbi.1009950⟩
Journal articles hal-03625706v1