Difference between revisions of "Part:BBa K389016:Experience"
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with the amount of product P, the cell count X and the specific production rate q<sub>P</sub>. | with the amount of product P, the cell count X and the specific production rate q<sub>P</sub>. | ||
| − | RFU is commensurate to the concentration of mRFP (P) and the OD<sub>600</sub> is commensurate to the cell count (X) [ | + | RFU is commensurate to the concentration of mRFP (P) and the OD<sub>600</sub> is commensurate to the cell count (X) ([https://parts.igem.org/Part:BBa_F2620:Experience/Endy/Data_analysis Canton and Labno, 2004]): |
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| − | This normalized specific production rate we calculated is commensurate to relative promotor units (RPU) which is commensurate to PoPS (polymerase per seconds) [ | + | This normalized specific production rate we calculated is commensurate to relative promotor units (RPU) which is commensurate to PoPS (polymerase per seconds) ([https://parts.igem.org/Part:BBa_F2620:Experience/Endy/Data_analysis Canton and Labno, 2004]; [https://parts.igem.org/Part:BBa_J23101:Experience Pasotti ''et al.'', 2009]): |
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====References==== | ====References==== | ||
| − | + | Canton B and Labno A (2004) Data processing of Part BBa_F2620, https://parts.igem.org/Part:BBa_F2620:Experience/Endy/Data_analysis. | |
| − | + | Pasotti L, Zucca S, Del Fabbro E (2009) Characterization experiment on BBa_J23100, BBa_J23101, BBa_J23118, https://parts.igem.org/Part:BBa_J23101:Experience. | |
===User Reviews=== | ===User Reviews=== | ||
Revision as of 14:50, 25 October 2010
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Applications of BBa_K389016
Data analysis for BBa_K389016
The data analysis is made in three steps. First step is the processing of the fluorescence raw data gained by the fluorescence plate reader for every sample:
In the second step the RFUcorrected of every sample is plotted against the cultivation time it was drawn. The data is fitted by an exponential fit of the following style:
The accumulation of mRFP in the cells is always exponential. A typical fitted product accumulation curve is shown below:
The product accumulation in a cultivation can be described as:
with the amount of product P, the cell count X and the specific production rate qP.
RFU is commensurate to the concentration of mRFP (P) and the OD600 is commensurate to the cell count (X) (Canton and Labno, 2004):
With these assumptions it is possible to calculate the specific production rate of mRFP qP in the third step: the specific production rate for every sample of a cultivation is calculated by the derivation of the exponential fit line which describes the accumulation of product in the culture (dRFU/dt) and the measured OD600 data:
The specific production rates qP of all samples of all cultivations made with a specific inductor concentration c are averaged and normalized against the specific production rate of the uninduced system qP,0:
This normalized specific production rate we calculated is commensurate to relative promotor units (RPU) which is commensurate to PoPS (polymerase per seconds) (Canton and Labno, 2004; Pasotti et al., 2009):
References
Canton B and Labno A (2004) Data processing of Part BBa_F2620, https://parts.igem.org/Part:BBa_F2620:Experience/Endy/Data_analysis.
Pasotti L, Zucca S, Del Fabbro E (2009) Characterization experiment on BBa_J23100, BBa_J23101, BBa_J23118, https://parts.igem.org/Part:BBa_J23101:Experience.
User Reviews
UNIQ3cd1413bcb8abf2c-partinfo-00000002-QINU UNIQ3cd1413bcb8abf2c-partinfo-00000003-QINU