IGEM:Imperial/2010/Modelling: Difference between revisions
From OpenWetWare
Jump to navigationJump to search
(→Kinetic constants: -) |
|||
| Line 4: | Line 4: | ||
Example on how Valencia 2006 team used SimulLink to simulate their project: [http://www.igem.upv.es/igem06/images/7/7d/ECOLITASTER.ppt Valencia 2006 PowerPoint presentation] | Example on how Valencia 2006 team used SimulLink to simulate their project: [http://www.igem.upv.es/igem06/images/7/7d/ECOLITASTER.ppt Valencia 2006 PowerPoint presentation] | ||
=== | =Output amplification model= | ||
== First attempt== | |||
Is it better to use TEV all the way or HIV1? Modelling should allows us to take decision which design is more efficient. If taken further, it will allow us to determine number of amplification steps that are most favourable. | Is it better to use TEV all the way or HIV1? Modelling should allows us to take decision which design is more efficient. If taken further, it will allow us to determine number of amplification steps that are most favourable. | ||
| Line 15: | Line 16: | ||
| [[Image:Model_output_010.jpg|450px|thumb|center|alt=A|TEV is used at both stages of amplification]] | | [[Image:Model_output_010.jpg|450px|thumb|center|alt=A|TEV is used at both stages of amplification]] | ||
| [[Image:Model_output_011.jpg|450px|thumb|center|alt=A|At each stage of amplification a distinct protease is being used ]] | | [[Image:Model_output_011.jpg|450px|thumb|center|alt=A|At each stage of amplification a distinct protease is being used ]] | ||
| | |} | ||
== Second attempt == | |||
{| | |||
| [[Image:Model_output_020.jpg.jpg|450px|thumb|center|alt=A|Model improved to account for the enzymes (protease action) ]] | | [[Image:Model_output_020.jpg.jpg|450px|thumb|center|alt=A|Model improved to account for the enzymes (protease action) ]] | ||
| | |||
|} | |} | ||
Revision as of 02:39, 2 August 2010
Have a look at this link: Synthetic Biology (Spring2008): Computer Modelling Practicals
Example on how Valencia 2006 team used SimulLink to simulate their project: Valencia 2006 PowerPoint presentation
Output amplification model
First attempt
Is it better to use TEV all the way or HIV1? Modelling should allows us to take decision which design is more efficient. If taken further, it will allow us to determine number of amplification steps that are most favourable.
 |
 |
 |
 |
Second attempt
 |
Kinetic constants
| Quality | GFP | TEV | split TEV | split GFP |
|---|---|---|---|---|
| Km and Kcat | Doesn't apply | TEV constants (Km and kcat) | 40% of whole TEV | Doesn't apply |
| half-life or degradation rate | Half-life of GFP in Bacillus = 1.5 hours - ref. Chris | ? | ? | ? |
| production rate in B.sub | ? | ? | ? | ? |
