Difference between revisions of "Conformational Switching"
From IridiaWiki
Jump to navigationJump to search| Line 17: | Line 17: | ||
=== Particulars of experiments (10 trials each) === |
=== Particulars of experiments (10 trials each) === |
||
| ⚫ | |||
* Self-assembly experiment at different speeds: |
* Self-assembly experiment at different speeds: |
||
** Run each experiment till self-assembly of one target structure |
** Run each experiment till self-assembly of one target structure |
||
| Line 33: | Line 34: | ||
** Passive components, no seed |
** Passive components, no seed |
||
** Passive components, AND seed |
** Passive components, AND seed |
||
| − | |||
| ⚫ | |||
* Results to show |
* Results to show |
||
** Experiments for setting parameter (shaking speed) |
** Experiments for setting parameter (shaking speed) |
||
** Time evolution of self-assembly |
** Time evolution of self-assembly |
||
| − | ** |
+ | ** Conformational switching eliminates incompatible structures |
** Scaling |
** Scaling |
||
** Removing the acceleration rump-up phase |
** Removing the acceleration rump-up phase |
||
Revision as of 17:31, 24 October 2014
Schedule
- 1st December, 2014 : Submit final draft of Conformational Switching paper to Marco
- 22nd November, 2014 : Finish first draft of Conformational Switching paper
- 8th November, 2014 : Finalise results, create plots
- 1st November, 2014 : Finalise plan for experiments and collect preliminary data
Todo
- Outline by 8th November
- Mount existing container on shaker
Experiments
- Self-assembly experiment at different speeds:
- Result: self-assembly time distribution for each speed; use in experiments speed with lowest average time to completion + 2 std. dev.
- Test to verify role of seed:
- Passive components, no seed
- Passive components, AND seed
Particulars of experiments (10 trials each)
- Video recording of experiments, probably one frame every second (1 fps).
- Self-assembly experiment at different speeds:
- Run each experiment till self-assembly of one target structure
- All components are seeds
- Passive components, no seed
- Passive components, AND seed
- Use different speeds starting from lowest speed (= when components start to move) and increment speed by 25 rpm till target structure breaks.
- Run each experiment till self-assembly of one target structure
- Assembly of one target structure (Data to be collected: number of individual components, number of compatible substructures, number of incompatible substructures, number of targets)
- All components are seeds
- Passive components, no seed
- Passive components, AND seed
- Assembly of two target structures (Data to be collected: number of individual components, number of compatible substructures, number of incompatible substructures, number of targets)
- All components are seeds
- Passive components, no seed
- Passive components, AND seed
- Results to show
- Experiments for setting parameter (shaking speed)
- Time evolution of self-assembly
- Conformational switching eliminates incompatible structures
- Scaling
- Removing the acceleration rump-up phase
- Plot of Gibbs free energy
