A. Davidovi, R. P. Chait, G. Batt, and J. Ruess, “Parameter inference for stochastic biochemical models from perturbation experiments parallelised at the single cell level,” PLoS Computational Biology, vol. 18, no. 3. Public Library of Science, 2022.
LibreCat: https://research-explorer.ista.ac.at/record/10939
DOI: 10.1371/journal.pcbi.1009950

J. Ruess, M. Pleska, C. C. Guet, and G. Tkadik, “Molecular noise of innate immunity shapes bacteria-phage ecologies,” PLoS Computational Biology, vol. 15, no. 7. Public Library of Science, 2019.
LibreCat: https://research-explorer.ista.ac.at/record/6784
DOI: 10.1371/journal.pcbi.1007168
WoS: 000481577700032

J. Ruess, M. Pleska, C. C. Guet, and G. Tkadik, “Supporting text and results.” Public Library of Science, 2019.
LibreCat: https://research-explorer.ista.ac.at/record/9786
DOI: 10.1371/journal.pcbi.1007168.s001

R. P. Chait, J. Ruess, T. Bergmiller, G. Tkadik, and C. C. Guet, “Shaping bacterial population behavior through computer interfaced control of individual cells,” Nature Communications, vol. 8, no. 1. Nature Publishing Group, 2017.
LibreCat: https://research-explorer.ista.ac.at/record/613
DOI: 10.1038/s41467-017-01683-1

C. Schilling, S. Bogomolov, T. A. Henzinger, A. Podelski, and J. Ruess, “Adaptive moment closure for parameter inference of biochemical reaction networks,” Biosystems, vol. 149. Elsevier, pp. 15–25, 2016.
LibreCat: https://research-explorer.ista.ac.at/record/1148
DOI: 10.1016/j.biosystems.2016.07.005

F. Parise, J. Lygeros, and J. Ruess, “Bayesian inference for stochastic individual-based models of ecological systems: a pest control simulation study,” Frontiers in Environmental Science, vol. 3. Frontiers, 2015.
LibreCat: https://research-explorer.ista.ac.at/record/10794
DOI: 10.3389/fenvs.2015.00042

J. Ruess, “Minimal moment equations for stochastic models of biochemical reaction networks with partially finite state space,” Journal of Chemical Physics, vol. 143, no. 24. American Institute of Physics, 2015.
LibreCat: https://research-explorer.ista.ac.at/record/1539
DOI: 10.1063/1.4937937

J. Ruess, F. Parise, A. Milias Argeitis, M. Khammash, and J. Lygeros, “Iterative experiment design guides the characterization of a light-inducible gene expression circuit,” PNAS, vol. 112, no. 26. National Academy of Sciences, pp. 8148–8153, 2015.
LibreCat: https://research-explorer.ista.ac.at/record/1538
DOI: 10.1073/pnas.1423947112
PMID: 26085136

S. Bogomolov, T. A. Henzinger, A. Podelski, J. Ruess, and C. Schilling, “Adaptive moment closure for parameter inference of biochemical reaction networks,” vol. 9308. Springer, pp. 77–89, 2015.
LibreCat: https://research-explorer.ista.ac.at/record/1658
DOI: 10.1007/978-3-319-23401-4_8

J. Ruess and J. Lygeros, “Moment-based methods for parameter inference and experiment design for stochastic biochemical reaction networks,” ACM Transactions on Modeling and Computer Simulation, vol. 25, no. 2. ACM, 2015.
LibreCat: https://research-explorer.ista.ac.at/record/1861
DOI: 10.1145/2688906