Endy:Measkit PLO/v2: Difference between revisions
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(New page: =Overal= ==Important points== #PoPS is an appropriate unit for promoter activity #*Promoter activity is sensitive to experimental conditions #*Promoter activity may be effected equivalentl...) |
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#Calibration of instruments to make PoPS measurement. | #Calibration of instruments to make PoPS measurement. | ||
#Reporting our measurements in PoPS. We didn't seriously determine the values of parameters in our GFP->PoPS model for any of the different conditions. We can say that this is significant work and in general is a strike against measurement in PoPS. | #Reporting our measurements in PoPS. We didn't seriously determine the values of parameters in our GFP->PoPS model for any of the different conditions. We can say that this is significant work and in general is a strike against measurement in PoPS. | ||
#RBS measurements - The only RBS measurements were taken in the Endy lab and we lack the significant multi-condition data and the lab-lab data that the promoters have. Also it requires a separate run through of the model and presents a more challenging set of issues with canceling some parameters since different RBS = different mRNAs. My main concern is that it distracts from the overall story. We could mention, but i'd rather see it in the Supplementary materials with a mention in the discussion? | |||
=Introduction= | =Introduction= |
Revision as of 05:46, 27 August 2008
Overal
Important points
- PoPS is an appropriate unit for promoter activity
- Promoter activity is sensitive to experimental conditions
- Promoter activity may be effected equivalently across different promoters when they are placed in different conditions
- Relative promoter activity measured in SPUs by normalizing to a reference standard may allow for the specification of a range of promoters and a range of conditions where relative promoter activity is predictable.
Leave out
- Calibration of instruments to make PoPS measurement.
- Reporting our measurements in PoPS. We didn't seriously determine the values of parameters in our GFP->PoPS model for any of the different conditions. We can say that this is significant work and in general is a strike against measurement in PoPS.
- RBS measurements - The only RBS measurements were taken in the Endy lab and we lack the significant multi-condition data and the lab-lab data that the promoters have. Also it requires a separate run through of the model and presents a more challenging set of issues with canceling some parameters since different RBS = different mRNAs. My main concern is that it distracts from the overall story. We could mention, but i'd rather see it in the Supplementary materials with a mention in the discussion?
Introduction
- Engineering many-component systems is made easier by developing collections of standard parts that can be reused.
- It is easier still to predict the behavior of engineered biological systems assembled from standard parts if the component parts themselves were well characterized.
- be scholarly here, making reference to current parts collections, and lack of characterization thereof.
- For example the registry of biological parts contains X promoters and Y RBSs Z of which have been measured.
- be scholarly here, making reference to current parts collections, and lack of characterization thereof.
- Measurement of physical objects is well understood and has been successfully developed and applied in other domains (e.g., principle of correlation, et cetera). At least 3 lessons: