Team:DTU-Denmark/Achievements/Calculator

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(Difference between revisions)

Latest revision as of 02:38, 18 October 2014

Fluorescence:
Standard curve, intercept:
Standard curve, slope:
Spinach concentration:		µM
	Calculate from concentration

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 examined 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.

Cell density:			CFU/L
	Calculate from OD measurement

OD600

Degradation rate:
	Calculate from half time

Degradation half time:

Growth rate:
	Calculate from doubling time

Growth doubling time:

Fold-fraction:		%
Copy number:

PoPS

Promoter activity
	PoPS

@@ Line 113: / Line 113: @@
    </tr>
    <tr>
-     <td width="7%" style="padding-top:7px"><input type="checkbox" name="conccheck"></td><td colspan="2" width="71%">Use concentration directly instead of fluorescence</td>
+     <td width="7%" style="padding-top:7px"><input type="checkbox" name="conccheck"></td><td colspan="2" width="71%">Calculate from concentration</td>
      <td width="15%"></td>
    </tr>
@@ Line 126: / Line 126: @@
 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.
+CFU/L or optical density at 600 nm (OD600) for your examined culture.
 We have found degradation rate of Spinach in <i>E. coli</i> when grown in LB at 37 &deg;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.
@@ Line 149: / Line 149: @@
    </tr>
    <tr>
-     <td width="7%" style="padding-top:7px"><input type="checkbox" name="CFUcheck"></td><td colspan="2" width="71%">Use OD measurement</td>
+     <td width="7%" style="padding-top:7px"><input type="checkbox" name="CFUcheck"></td><td colspan="2" width="71%">Calculate from OD measurement</td>
      <td width="21%"></td>
    </tr>
@@ Line 173: / Line 173: @@
      <td width="63%" colspan="2">Degradation rate:</td>
      <td width="16%" style="text-align:right; padding-top: 3px;">
-     <input name="degen" type="number" step="any" min="0" placeholder="0.74" value="0.74" style="width:90px" />
+     <input name="degen" type="number" step="any" min="0" placeholder="0.740" value="0.740" style="width:90px" />
      </td>
      <td width="21%" style="padding-top:3px">
@@ Line 184: / Line 184: @@
    </tr>
    <tr>
-     <td width="7%" style="padding-top:7px"><input type="checkbox" name="degcheck"></td><td colspan="2" width="74%">Use degradation half time</td>
+     <td width="7%" style="padding-top:7px"><input type="checkbox" name="degcheck"></td><td colspan="2" width="74%">Calculate from half time</td>
    </tr>
 </table>
@@ Line 193: / Line 193: @@
      <td width="63%">Degradation half time:</td>
      <td width="16%" style="text-align:right; padding-top: 3px;">
-         <input name="deghalf" type="number" step="any" min="0" style="width:90px" />
+         <input name="deghalf" type="number" step="any" min="0" placeholder="0.937" value="0.937" style="width:90px" />
 	</td>
      <td width="21%" style="padding-top:4px">
@@ Line 222: / Line 222: @@
    </tr>
    <tr>
-     <td width="7%" style="padding-top:7px"><input type="checkbox" name="growthcheck"></td><td colspan="2" width="74%">Use growth doubling time<br></td>
+     <td width="7%" style="padding-top:7px"><input type="checkbox" name="growthcheck"></td><td colspan="2" width="74%">Calculate from doubling time<br></td>
    </tr>
 </table>
@@ Line 231: / Line 231: @@
      <td width="63%">Growth doubling time:</td>
      <td width="16%" style="text-align:right; padding-top: 3px;">
-         <input name="grodouble" type="number" step="any" min="0" style="width:90px" />
+         <input name="grodouble" type="number" step="any" min="0" placeholder="0.870" value="0.870" style="width:90px" />
      <td width="21%" style="padding-top:4px">
 	<select name="grodoubleunit">
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