Optogenetic closed-loop feedback control of the unfolded protein response optimizes protein production
- Moritz Benisch, Dirk Benzinger, Sant Kumar, …, Sant Kumar, Hanrong Hu, Mustafa Khammash
- Metab Eng, 10.1016/j.ymben.2023.03.001
A cybergenetic framework for engineering intein-mediated integral feedback control systems
- Stanislav Anastassov, Maurice Filo, Ching-Hsiang Chang, …, Maurice Filo, Ching-Hsiang Chang, Mustafa Khammash
- Nat Commun, 10.1038/s41467-023-36863-9
Biomolecular feedback controllers: from theory to applications
- Maurice Filo, Ching-Hsiang Chang, Mustafa Khammash, …, Maurice Filo, Ching-Hsiang Chang, Mustafa Khammash
- Curr Opin Biotechnol, 10.1016/j.copbio.2022.102882
Universal structural requirements for maximal robust perfect adaptation in biomolecular networks
- Ankit Gupta, Mustafa Khammash, Ankit Gupta, Mustafa Khammash
- Proc Natl Acad Sci U S A, 10.1073/pnas.2207802119
Dynamic cybergenetic control of bacterial co-culture composition via optogenetic feedback
- JoaquÃn Gutiérrez Mena, Sant Kumar, Mustafa Khammash
- Nat Commun, 10.1038/s41467-022-32392-z
DeepCME: A deep learning framework for computing solution statistics of the chemical master equation
- Ankit Gupta, Christoph Schwab, Mustafa Khammash
- PLoS Comput Biol, 10.1371/journal.pcbi.1009623
Rapid prototyping and design of cybergenetic single-cell controllers
- Sant Kumar, Marc Rullan, Mustafa Khammash
- Nat Commun, 10.1038/s41467-021-25754-6
A hidden integral structure endows absolute concentration robust systems with resilience to dynamical concentration disturbances
- Daniele Cappelletti, Ankit Gupta, Mustafa Khammash
- J R Soc Interface, 10.1098/rsif.2020.0437
Likelihood-free nested sampling for parameter inference of biochemical reaction networks
- Jan Mikelson, Mustafa Khammash
- PLoS Comput Biol, 10.1371/journal.pcbi.1008264
Characterization and mitigation of gene expression burden in mammalian cells
- Timothy Frei, Federica Cella, Fabiana Tedeschi, …, Guy-Bart Stan, Mustafa Khammash, Velia Siciliano
- Nat Commun, 10.1038/s41467-020-18392-x
The probability distribution of the reconstructed phylogenetic tree with occurrence data
- Ankit Gupta, Marc Manceau, Timothy Vaughan, Mustafa Khammash, Tanja Stadler
- J Theor Biol, 10.1016/j.jtbi.2019.110115
Temporal perturbation of ERK dynamics reveals network architecture of FGF2/MAPK signaling
- Yannick Blum, Jan Mikelson, Maciej DobrzyÅ„ski, …, Noo Li Jeon, Mustafa Khammash, Olivier Pertz
- Mol Syst Biol, 10.15252/msb.20198947
A finite state projection method for steady-state sensitivity analysis of stochastic reaction networks
- Patrik Dürrenberger, Ankit Gupta, Mustafa Khammash
- J Chem Phys, 10.1063/1.5085271
Sensitivity Analysis for Multiscale Stochastic Reaction Networks Using Hybrid Approximations
- Ankit Gupta, Mustafa Khammash
- Bull Math Biol, 10.1007/s11538-018-0521-4