IGEM:IMPERIAL/2006/project/Oscillator/project browser/Full System: Difference between revisions
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!height="25pt" width="80pt"| Super Parts | !height="25pt" width="80pt"| Super Parts | ||
!colspan="2" | | !colspan="2" | Not Applicable | ||
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!height="25pt" width="80pt"|Actual Part | !height="25pt" width="80pt"|Actual Part | ||
!colspan="2"| Logo | !colspan="2"| Full System Logo | ||
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!height="25pt" width="80pt"|Sub Parts | !height="25pt" width="80pt"|Sub Parts | ||
! [[IGEM:IMPERIAL/2006/project/Oscillator/project browser/Prey_Construct| Prey | ! [[IGEM:IMPERIAL/2006/project/Oscillator/project browser/Prey_Construct| Prey Molecule Generator]] | ||
! [[IGEM:IMPERIAL/2006/project/Oscillator/project browser/Predator_Construct| Predator | ! [[IGEM:IMPERIAL/2006/project/Oscillator/project browser/Predator_Construct| Predator Molecule Generator]] | ||
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==Motivations== | |||
* | *'''Oscillators''' are a '''fundamental building block''' in traditional engineering applications (i.e. computers, radio, clocks) , as well as a recurrent motif in many biological systems (i.e.circadian rhythm, menstrual cycle). | ||
*We intend to build a '''generic''' and '''modular synthetic biological oscillator''' that can become a fundamental building block in future synthetic biological applications. | |||
*Previous oscillators have been attempted (such as the [http://www.nature.com/nature/journal/v403/n6767/abs/403335a0.html Repressilator] by Elowitz and Leibler in 2000) but they often share the following problems: | |||
::*'''Noisy''' and '''Unstable''' (due to stochastic molecular events at the single cell level, cell-cell variability, cell division) | |||
::*'''Damping''' (i.e.with cell-cell asynchrony) | |||
::*'''Inflexible''' (i.e. lack of control over amplitude and frequency) | |||
::*'''No easy connectivity''' (hard to integrate into larger systems) | |||
*Specifications | *Based on these past limitations, we have defined the''' specifications for our oscillator'''. | ||
==System Specifications== | |||
{| border="1" width="100%" | |||
** | |- style="background:blue" | ||
! width="100pt" |Properties !! Comments | |||
|- | |||
| style="background:lightblue" width="100pt" |'''Expected output''' ||align="center" | [[Image:Oscillator output.png|200px| center]] | |||
|- | |||
| style="background:lightblue" width="100pt" |'''Stability''' ||Oscillations should be stable for greater then 10 cycles. Stable in amplitude, frequency and output profile. | |||
|- | |||
| style="background:lightblue" width="100pt" |'''Variability''' ||Output signal should have a high signal to noise ratio. | |||
|- | |||
| style="background:lightblue" width="100pt" |'''Flexibility''' ||Amplitude and frequency should be controllable. | |||
|- | |||
| style="background:lightblue" width="100pt" |'''Amplitude Range'''|| Large enough to have an easy detection. | |||
|- | |||
|style="background:lightblue" width="100pt" | '''Frequency Range'''||From a period of the order of the hour to several hours. | |||
|- | |||
| style="background:lightblue" width="100pt" |'''Connectivity''' ||The oscillator should be easily integrated into other more complicated systems. Modular and generic output. | |||
|} | |||
==Part interface== | |||
{| border="0" width="100% align="center" | |||
|- | |||
| | |||
{| border="1" cellpadding="15" width="100%" | |||
|- | |||
! style="background:#66CC99"| INPUTS !!style="background:#FF3333"| OUTPUTS | |||
|- | |||
| On/Off || rowspan="3"| Output signal | |||
|- | |||
| Frequency tuning | |||
|- | |||
| Amplitude tuning | |||
|} | |||
|[[Image:Oscillatorblkbox2.png|450px]] | |||
|} | |||
==Open issues== | |||
*In electronic, the stability of the oscillations is a key factor, but the profile of the ouput signal is also an important property of an oscillator. There is an important variety of output profiles used in electronic (harmonic, square-wave, triangle-wave). Sometimes, for a given application a given profile is required. [http://en.wikipedia.org/wiki/Electronic_oscillator read more>>] | |||
*Due to biological variability, getting a stable behavior might be challenging. | |||
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Latest revision as of 04:36, 31 October 2006
Super Parts | Not Applicable | |
---|---|---|
Actual Part | Full System Logo | |
Sub Parts | Prey Molecule Generator | Predator Molecule Generator |
Motivations
- Oscillators are a fundamental building block in traditional engineering applications (i.e. computers, radio, clocks) , as well as a recurrent motif in many biological systems (i.e.circadian rhythm, menstrual cycle).
- We intend to build a generic and modular synthetic biological oscillator that can become a fundamental building block in future synthetic biological applications.
- Previous oscillators have been attempted (such as the Repressilator by Elowitz and Leibler in 2000) but they often share the following problems:
- Noisy and Unstable (due to stochastic molecular events at the single cell level, cell-cell variability, cell division)
- Damping (i.e.with cell-cell asynchrony)
- Inflexible (i.e. lack of control over amplitude and frequency)
- No easy connectivity (hard to integrate into larger systems)
- Based on these past limitations, we have defined the specifications for our oscillator.
System Specifications
Properties | Comments |
---|---|
Expected output | |
Stability | Oscillations should be stable for greater then 10 cycles. Stable in amplitude, frequency and output profile. |
Variability | Output signal should have a high signal to noise ratio. |
Flexibility | Amplitude and frequency should be controllable. |
Amplitude Range | Large enough to have an easy detection. |
Frequency Range | From a period of the order of the hour to several hours. |
Connectivity | The oscillator should be easily integrated into other more complicated systems. Modular and generic output. |
Part interface
|
Open issues
- In electronic, the stability of the oscillations is a key factor, but the profile of the ouput signal is also an important property of an oscillator. There is an important variety of output profiles used in electronic (harmonic, square-wave, triangle-wave). Sometimes, for a given application a given profile is required. read more>>
- Due to biological variability, getting a stable behavior might be challenging.
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