Team:DTU-Denmark/Achievements/Calculator

From 2014.igem.org

(Difference between revisions)

Revision as of 00:51, 18 October 2014

Fluorescence:
Standard curve, intercept:
Standard curve, slope:
Spinach concentration:		µM
	Input concentration directly

PoPS calculator V. 1.0

This calculator allows you to calculate your promoter activity in PoPS (Polymerases Per Second) In order to use it you need to obtain: Fluorescence signal from your culture. Fluorescence per spinach (slope of a standard series). Background fluorescence from your culture (intercept). CFU/L or optical density at 600 nm (OD600) for your measured culture. We have found degradation rate of Spinach in E. coli when grown in LB at 37 °C so feel free to use this value. You also need a growth rate for your culture, and the copy number of the Spinach sequence per cell. When your values are entered to the calculator you will receive your result, the calculator works using the formula derived here

CFU count			CFU/L
	Use OD measurement

OD600

Degradation rate:
	Use degradation half time

Degradation half time:

Growth rate:
	Use growth doubling time

Growth doubling time:

Fold-fraction:		%
Copy number:

PoPS

Promoter activity
	PoPS

@@ Line 40: / Line 40: @@
-var conc = (parseFloat(fluorescence.value)-parseFloat(intercept.value)) / parseFloat(slope.value);
+val conc = (parseFloat(fluorescence.value)-parseFloat(intercept.value)) / parseFloat(slope.value);
-var CFUcount = parseFloat(CFU.value);
+val CFUcount = parseFloat(CFU.value);
-var fold = parseFloat(foldfraction.value);
+val fold = parseFloat(foldfraction.value);
-var degenvar = parseFloat(degen.value)/parseFloat(degenunit.value);
+val degenvar = parseFloat(degen.value)/parseFloat(degenunit.value);
-var growthvar = parseFloat(growth.value)/parseFloat(growthunit.value);
+val growthvar = parseFloat(growth.value)/parseFloat(growthunit.value);
@@ Line 56: / Line 56: @@
-num activity1 = (parseFloat(conc)/(parseFloat(CFUcount)/1e12)*(602200/(parseFloat(fold)/100)))*((parseFloat(degenvar))+(parseFloat(growthvar)))/parseFloat(copynumber.value);
+val activity1 = (parseFloat(conc)/(parseFloat(CFUcount)/1e12)*(602200/(parseFloat(fold)/100)))*((parseFloat(degenvar))+(parseFloat(growthvar)))/parseFloat(copynumber.value);
 activity1 = Math.round(activity1)*10000)/10000;