The BioBricks Foundation:Standards/Technical/Measurement: Difference between revisions

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=Goals of the BBF Measurement Working Group=
*We aim to submit the following standards for comment in advance of the June workshop:
** the definition of a consensus relative fluorescence unit of measure - a 'Biobricks E. coli GFP fluorescence unit'
** a standard method for measuring promoter strengths


==Promoter measurement test==
=Briefing on Measuring Promoters & RBSs=
[[Image:Promoter tester demo.jpg|500px|thumb|left|Plate reader measurements of the promoter set]]
<html>
<embed style="width:400px; height:326px;" id="VideoPlayback" type="application/x-shockwave-flash" src="http://video.google.com/googleplayer.swf?docId=3783852973289336417&hl=en" flashvars=""> </embed>
</html>
*[http://video.google.com/googleplayer.swf?docId=3783852973289336417&hl=en Video] from [[User:Jason R. Kelly|Jason Kelly]] introducing a standard measurement kit for characterizing BioBrick promoters and RBSs. (feel free to comment via [[Talk:The BioBricks Foundation:Standards/Technical/Measurement|talk page]], [http://blog.openwetware.org/freegenes/2008/03/08/video-talk-physical-reference-standards-for-bioengineering/ blog], [[Special:Emailuser/Jason_R._Kelly|email]], smoke signal, etc.)
 
=Promoter measurement test=
[[Image:Promoter tester demo.jpg|500px|thumb|left|Plate reader & FACS measurements of the promoter set at MIT]]
<br style="clear:both" />
[[Image:Mfa0910100 BBF FACS.jpg|500px|thumb|left|FACS of promoter set at Lawrence Berkeley]]
<br style="clear:both" />
[[Image:DDM_promoter_chart.jpg|500px|thumb|left|FACS measurements of promoter set at Johns Hopkins]]
<br style="clear:both" />
 
==Protocols==
*[[/Promoter characterization experiment (FACS)]]
 
==Notebooks==
*[[Notebook:Jason R. Kelly/Projects/BBF Meas Standards]] - Jason's lab notebook.
*[[Notebook:Jason R. Kelly/Projects/BBF Meas Standards]] - Jason's lab notebook.
*[[User:Dileep_D._Monie/Notebook/BBF_Standards_Measurement]] - Dileep's lab notebook
==Notes==
*[[Talk:The_BioBricks_Foundation:Workshop2/Functional_Measurement_Standards|Notes from the BBF meeting]]
*[[Registry/Measurement kit]]
{|
|-
|
|-
|
[[Image:Measkit promoter FACS.PNG|500px|thumb|left|Histogram of the MIT FACS data above, sorry there's no legend, but just wanted to show that the peaks aren't multimodal. The numbers reported as 'FACS' in the bar chart are the geometric means of these peaks reported relative to I20260 (dark blue).]]
|}
=References =
<biblio>
#1 pmid=10860516
</biblio>
*[http://www.jstor.org/stable/301998 The Ohm is where the art is (Bruce Hunt)] - amazing history of standard setting in electrical engineering
*[http://books.google.com/books?id=8M0LAAAAYAAJ Reports of the Committee on Electrical Standards (1873)] - The committee was responsible for determining "what would be the most convenient unit of resistance, and second what would be the best form and material for the standard representing that unit".

Latest revision as of 15:55, 3 November 2008

Goals of the BBF Measurement Working Group

  • We aim to submit the following standards for comment in advance of the June workshop:
    • the definition of a consensus relative fluorescence unit of measure - a 'Biobricks E. coli GFP fluorescence unit'
    • a standard method for measuring promoter strengths

Briefing on Measuring Promoters & RBSs

<html> <embed style="width:400px; height:326px;" id="VideoPlayback" type="application/x-shockwave-flash" src="http://video.google.com/googleplayer.swf?docId=3783852973289336417&hl=en" flashvars=""> </embed> </html>

  • Video from Jason Kelly introducing a standard measurement kit for characterizing BioBrick promoters and RBSs. (feel free to comment via talk page, blog, email, smoke signal, etc.)

Promoter measurement test

Plate reader & FACS measurements of the promoter set at MIT


FACS of promoter set at Lawrence Berkeley


FACS measurements of promoter set at Johns Hopkins


Protocols

Notebooks

Notes

Histogram of the MIT FACS data above, sorry there's no legend, but just wanted to show that the peaks aren't multimodal. The numbers reported as 'FACS' in the bar chart are the geometric means of these peaks reported relative to I20260 (dark blue).

References

  1. Dyer BW, Ferrer FA, Klinedinst DK, and Rodriguez R. A noncommercial dual luciferase enzyme assay system for reporter gene analysis. Anal Biochem. 2000 Jun 15;282(1):158-61. DOI:10.1006/abio.2000.4605 | PubMed ID:10860516 | HubMed [1]
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