Endy:Chassis engineering/VM2.0

VM2.0 design considerations

Regulation scheme for VM2.0

1. Stability
   • Noise
   • Response time
2. Self-booting/controlled
   • Ability to turn on or off
   • Ability to move around
3. Tunable
   • Pros and cons of DNA copy number, promoter strength, repressor affinities etc.
4. Efficient
   • Minimizing levels of repressor needed
   • Minimizing consumption of small molecules

What are the metrics for each of the design considerations?

Model

Continuous differential equation model.

Species

1. T7 RNAP
2. Repressor
3. Ribosomes
4. Repressible T7 promoter
5. T7RNAP-promoter complex
6. Repressor-promoter complex
7. T7 RNAP mRNA
8. Repressor mRNA
9. Elongating T7 RNAP
10. Elongating Ribosomes
11. etc.