IGEM:IMPERIAL/2007/Graphs presentation

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====3.Optimizing the  S30====
====3.Optimizing the  S30====
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'''Model:DNA conc vs output'''
'''Graph:Plux DNA Conc vs Fluorescence <br>'''
'''Graph:Plux DNA Conc vs Fluorescence <br>'''
'''Graph:PTet DNA Concentration vs Fluorescence'''
'''Graph:PTet DNA Concentration vs Fluorescence'''
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====4.Infecter Detector====
====4.Infecter Detector====
First need to explain construct 1 and construct 2, explaining that we had to purify LuxR. Need to explain we successfully purified LuxR, however when we tested it it appeared to work less efficiently as construct 1.  
First need to explain construct 1 and construct 2, explaining that we had to purify LuxR. Need to explain we successfully purified LuxR, however when we tested it it appeared to work less efficiently as construct 1.  
 +
*'''Model:Construct 1+construct 2 vs Output'''
*'''Graph:Construct 1+construct 2 vs Fluorescence'''
*'''Graph:Construct 1+construct 2 vs Fluorescence'''
 +
*'''Model:Transient function of construct 1 (energy limited)'''
 +
*'''Model:AHL conc vs output at specific time'''
* Final titration curve of AHL vs fluorescence (at what time ?)
* Final titration curve of AHL vs fluorescence (at what time ?)
*'''Graph:AHL conc vs Fluorescence''' (what about the time dimension ?)
*'''Graph:AHL conc vs Fluorescence''' (what about the time dimension ?)
-
* what about the concept of visual threshold ?
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* what about the concept of visual threshold ? => photo of DsRed Express?
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* what about the graphs from the modelling ?
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*Final testing with DsRed express (touch wood)<br>
*Final testing with DsRed express (touch wood)<br>
* Need to think about mock up, going to be either in a gel or in a tube
* Need to think about mock up, going to be either in a gel or in a tube

Revision as of 08:42, 12 October 2007

Contents

Graphs Presentation

This is a page to help us decide on what graphs to use for the final presentation. The structure and possible the graphs will change as the story line changes, however, if we put down all the graphs we think we are going to use.

If people agree on the list we can put up the graphs we have already.

One issue is in vivo, Paul Freemont raised the issue that we should have some comparison. Not sure where we can fit this in.

1.Calibration Curve

To measure our cell free systems we decided to use fluorometer. In order to model our system we wanted to construct a calibration curve to convert our data into rate of GFP produced. To do this we purified GFPmut3b.
Graph:calibration curve ([GFP] vs Fluorescence) - in which medium ? -
figure:SDS-gel of purified GFP
photo of purified GFP. (Eppendorff ? with UV light ?)
Graph:Degradation of GFP (in which medium ? water, commercial cell extract, home made-one ? )
Also I think it would be valuable explaining how we have explored changing our methodology e.g. concerning evaporation etc.

2.Introduction into cell free systems

To help us show introduce the different types of cell free and explain that we looked into the commercial S30 and home made. In the end we chose commercial because of the higher output.

  • Graph presenting the properties of a cell free system (lifespan, initial production rate, total protein production ...)
  • Cell-free systems we played with:
    • Home made S30
    • Commercial S30
    • Commercial S30 in vesicles
  • Block diagram to illustrate recipe on how to make a cell extract ?
  • Graph: Home made cell extract + commercial vs Fluorescence (what does this mean ? What is producing the fluorescence ?)
  • Block diagram to illustrate recipe on how to make vesicles ?

3.Optimizing the S30

Model:DNA conc vs output Graph:Plux DNA Conc vs Fluorescence
Graph:PTet DNA Concentration vs Fluorescence

4.Infecter Detector

First need to explain construct 1 and construct 2, explaining that we had to purify LuxR. Need to explain we successfully purified LuxR, however when we tested it it appeared to work less efficiently as construct 1.

  • Model:Construct 1+construct 2 vs Output
  • Graph:Construct 1+construct 2 vs Fluorescence
  • Model:Transient function of construct 1 (energy limited)
  • Model:AHL conc vs output at specific time
  • Final titration curve of AHL vs fluorescence (at what time ?)
  • Graph:AHL conc vs Fluorescence (what about the time dimension ?)
  • what about the concept of visual threshold ? => photo of DsRed Express?
  • Final testing with DsRed express (touch wood)
  • Need to think about mock up, going to be either in a gel or in a tube
  • Photo/Video:DsRed express being expressed in..and being visible

5.Cell by Date

ant has already made a page concerning this,

http://openwetware.org/wiki/IGEM:IMPERIAL/2007/Cell_By_Date/Testing

  • It would be good to list again all the data we want to present.
  • What about the modelling data ?
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