A MATLAB toolbox for modeling genetic circuits in cell-free systems.
Synth Biol (Oxf)
; 6(1): ysab007, 2021.
Article
en En
| MEDLINE
| ID: mdl-33981862
We introduce a MATLAB-based simulation toolbox, called txtlsim, for an Escherichia coli-based Transcription-Translation (TX-TL) system. This toolbox accounts for several cell-free-related phenomena, such as resource loading, consumption and degradation, and in doing so, models the dynamics of TX-TL reactions for the entire duration of solution phase batch-mode experiments. We use a Bayesian parameter inference approach to characterize the reaction rate parameters associated with the core transcription, translation and mRNA degradation mechanics of the toolbox, allowing it to reproduce constitutive mRNA and protein-expression trajectories. We demonstrate the use of this characterized toolbox in a circuit behavior prediction case study for an incoherent feed-forward loop.
Texto completo:
1
Colección:
01-internacional
Base de datos:
MEDLINE
Tipo de estudio:
Prognostic_studies
Idioma:
En
Revista:
Synth Biol (Oxf)
Año:
2021
Tipo del documento:
Article
País de afiliación:
Singapur
Pais de publicación:
Reino Unido