Week 14

From 2007.igem.org

(Difference between revisions)
 
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Line 1: Line 1:
::'''10/01/07'''
::'''10/01/07'''
*Meeting: Ethical issue.
*Meeting: Ethical issue.
-
 
+
*Work on image segmentation algorithm.
Line 7: Line 7:
*Digestion of [http://partsregistry.org/Part:pSB4A3 pSB4A3];
*Digestion of [http://partsregistry.org/Part:pSB4A3 pSB4A3];
*Run on electrophoresis gel.
*Run on electrophoresis gel.
-
*[http://partsregistry.org/Part:pSB4A3 pSB4A3] and [http://partsregistry.org/Part:I763033 I763033] band extraction.
+
*[http://partsregistry.org/Part:pSB4A3 pSB4A3] and [http://partsregistry.org/Part:BBa_I763033 I763033] band extraction.
*Ligations for:  
*Ligations for:  
-
::-[http://partsregistry.org/Part:I763004 I763004]+[http://partsregistry.org/Part:I763033 I763033];
+
::-[http://partsregistry.org/Part:BBa_I763004 I763004]+[http://partsregistry.org/Part:BBa_I763033 I763033];
-
::-[http://partsregistry.org/Part:I763012 I763012]+[http://partsregistry.org/Part:I763020 I763020][http://partsregistry.org/Part:I763032 (I763032)].
+
::-[http://partsregistry.org/Part:BBa_I763012 I763012]+[http://partsregistry.org/Part:BBa_I763020 I763020][http://partsregistry.org/Part:BBa_I763032 (I763032)].
Line 17: Line 17:
::'''10/03/07'''
::'''10/03/07'''
*Digestions of:
*Digestions of:
-
::-[http://partsregistry.org/Part:I763032 I763032] with Eco/Pst1;
+
::-[http://partsregistry.org/Part:BBa_I763032 I763032] with Eco/Pst1;
-
::-[http://partsregistry.org/Part:I763031 I763031] with Eco/Pst1;
+
::-[http://partsregistry.org/Part:BBa_I763031 I763031] with Eco/Pst1;
-
::-[http://partsregistry.org/Part:I763036 I763036] with Eco/Pst1;
+
::-[http://partsregistry.org/Part:BBa_I763036 I763036] with Eco/Pst1;
::-[http://partsregistry.org/Part:pSB4A3 pSB4A3] with Eco/Pst1.
::-[http://partsregistry.org/Part:pSB4A3 pSB4A3] with Eco/Pst1.
*Run on electrophoresis gel.
*Run on electrophoresis gel.
-
*[http://partsregistry.org/Part:I763031 I763031], [http://partsregistry.org/Part:I763036 I763036] and [http://partsregistry.org/Part:pSB4A3 pSB4A3] band extraction.
+
*[http://partsregistry.org/Part:BBa_I763031 I763031], [http://partsregistry.org/Part:BBa_I763036 I763036] and [http://partsregistry.org/Part:pSB4A3 pSB4A3] band extraction.
*Transformations of:
*Transformations of:
-
::-[http://partsregistry.org/Part:I763034 I763034];  
+
::-[http://partsregistry.org/Part:BBa_I763034 I763034];  
-
::-[http://partsregistry.org/Part:I763031 I763031];
+
::-[http://partsregistry.org/Part:BBa_I763031 I763031];
-
::-[http://partsregistry.org/Part:I763032 I763032].
+
::-[http://partsregistry.org/Part:BBa_I763032 I763032].
*Ligations for:
*Ligations for:
-
::-[http://partsregistry.org/Part:I763031 I763031]+[http://partsregistry.org/Part:pSB4A3 pSB4A3];
+
::-[http://partsregistry.org/Part:BBa_I763031 I763031]+[http://partsregistry.org/Part:pSB4A3 pSB4A3];
-
::-[http://partsregistry.org/Part:I763032 I763032::-[http://partsregistry.org/Part:I763032 I763032].
+
::-[http://partsregistry.org/Part:BBa_I763032 I763032]+[http://partsregistry.org/Part:pSB4A3 pSB4A3];
'''Experimental Setup'''
'''Experimental Setup'''
Line 42: Line 42:
::'''10/04/07'''
::'''10/04/07'''
-
*Trasformation of
+
*Trasformation of:
-
::-[http://partsregistry.org/Part:I763031 I763031]+[http://partsregistry.org/Part:pSB4A3 pSB4A3];
+
::-[http://partsregistry.org/Part:BBa_I763031 I763031]+[http://partsregistry.org/Part:pSB4A3 pSB4A3];
-
::-[http://partsregistry.org/Part:I763032 I763032]+[http://partsregistry.org/Part:pSB4A3 pSB4A3];
+
::-[http://partsregistry.org/Part:BBa_I763032 I763032]+[http://partsregistry.org/Part:pSB4A3 pSB4A3];
-
*We inoculate [http://partsregistry.org/Part:I763034 I763034],I763031+pSB4A3 and [http://partsregistry.org/Part:I763032 I763032].+pSB4A3 (in 6 ml).
+
*We inoculate [http://partsregistry.org/Part:BBa_I763034 I763034], [http://partsregistry.org/Part:BBa_I763031 I763031] + [http://partsregistry.org/Part:pSB4A3 pSB4A3] and [http://partsregistry.org/Part:BBa_I763032 I763032]+[http://partsregistry.org/Part:pSB4A3 pSB4A3] (in 6 ml).
Line 51: Line 51:
      
      
::'''10/05/07'''
::'''10/05/07'''
-
*Stock preparation (500 ul) of I763034,I763031+pSB4A3 and I763032+pSB4A3.
+
*Stock preparation (500 ul) of [http://partsregistry.org/Part:I763034 I763034],[http://partsregistry.org/Part:BBa_I763031 I763031]+[http://partsregistry.org/Part:BBa_pSB4A3 pSB4A3] and [http://partsregistry.org/Part:BBa_I763032 I763032]+[http://partsregistry.org/Part:BBa_pSB4A3 pSB4A3].
-
*Miniprep of I763034,I763031+pSB4A3 and I763032+pSB4A3.
+
*Miniprep of [http://partsregistry.org/Part:BBa_I763034 I763034], [http://partsregistry.org/Part:BBa_I763031 I763031]+[http://partsregistry.org/Part:BBa_pSB4A3 pSB4A3] and [http://partsregistry.org/Part:BBa_I763032 I763032]+[http://partsregistry.org/Part:BBa_pSB4A3 pSB4A3].
-
*Control digestion of  
+
*Control digestion of:
-
::-I763034 with Xba/Pst1;
+
::-[http://partsregistry.org/Part:BBa_I763034 I763034] with Xba/Pst1;
-
::-I763031 with Eco/Xba and Xba/Pst1;
+
::-[http://partsregistry.org/Part:BBa_I763031 I763031] with Eco/Xba and Xba/Pst1;
-
::-I763032 with Eco/Xba and Xba/Pst1.
+
::-[http://partsregistry.org/Part:BBa_I763032 I763032] with Eco/Xba and Xba/Pst1.
-
*Run on electrophoresis gel and I763032 (Eco/Xba and Xba/Pst1) band extraction.
+
*Run on electrophoresis gel and [http://partsregistry.org/Part:BBa_I763032 I763032] (Eco/Xba and Xba/Pst1) band extraction.
-
[[Bologna | Back]]
+
[[Bologna#Diary | Back]]

Latest revision as of 15:51, 26 October 2007

10/01/07
  • Meeting: Ethical issue.
  • Work on image segmentation algorithm.


10/02/07
  • Digestion of [http://partsregistry.org/Part:pSB4A3 pSB4A3];
  • Run on electrophoresis gel.
  • [http://partsregistry.org/Part:pSB4A3 pSB4A3] and [http://partsregistry.org/Part:BBa_I763033 I763033] band extraction.
  • Ligations for:
-[http://partsregistry.org/Part:BBa_I763004 I763004]+[http://partsregistry.org/Part:BBa_I763033 I763033];
-[http://partsregistry.org/Part:BBa_I763012 I763012]+[http://partsregistry.org/Part:BBa_I763020 I763020][http://partsregistry.org/Part:BBa_I763032 (I763032)].



10/03/07
  • Digestions of:
-[http://partsregistry.org/Part:BBa_I763032 I763032] with Eco/Pst1;
-[http://partsregistry.org/Part:BBa_I763031 I763031] with Eco/Pst1;
-[http://partsregistry.org/Part:BBa_I763036 I763036] with Eco/Pst1;
-[http://partsregistry.org/Part:pSB4A3 pSB4A3] with Eco/Pst1.
  • Run on electrophoresis gel.
  • [http://partsregistry.org/Part:BBa_I763031 I763031], [http://partsregistry.org/Part:BBa_I763036 I763036] and [http://partsregistry.org/Part:pSB4A3 pSB4A3] band extraction.
  • Transformations of:
-[http://partsregistry.org/Part:BBa_I763034 I763034];
-[http://partsregistry.org/Part:BBa_I763031 I763031];
-[http://partsregistry.org/Part:BBa_I763032 I763032].
  • Ligations for:
-[http://partsregistry.org/Part:BBa_I763031 I763031]+[http://partsregistry.org/Part:pSB4A3 pSB4A3];
-[http://partsregistry.org/Part:BBa_I763032 I763032]+[http://partsregistry.org/Part:pSB4A3 pSB4A3];

Experimental Setup

  • To have an higher precision for our measurements, we have decided to get, for the same field of view on the same sample of bacteria solution, either a short film segment (from which we can extract frames) and a Microsoft Excel file, which contains a ten seconds interval of values from the photomultiplier output, taken at a 100Hz frequency.
  • In order to have the same focus for the microscope's oculars, the photocamera and the photomultiplier we have to calibrate our system by changing the position of both camera and photomultiplier.
  • Finally, we check that the photomultiplier field of view is the same size as the microscope's one: by moving the appropiate diaphragms, we adjust the previously done settings.


10/04/07
  • Trasformation of:
-[http://partsregistry.org/Part:BBa_I763031 I763031]+[http://partsregistry.org/Part:pSB4A3 pSB4A3];
-[http://partsregistry.org/Part:BBa_I763032 I763032]+[http://partsregistry.org/Part:pSB4A3 pSB4A3];
  • We inoculate [http://partsregistry.org/Part:BBa_I763034 I763034], [http://partsregistry.org/Part:BBa_I763031 I763031] + [http://partsregistry.org/Part:pSB4A3 pSB4A3] and [http://partsregistry.org/Part:BBa_I763032 I763032]+[http://partsregistry.org/Part:pSB4A3 pSB4A3] (in 6 ml).



10/05/07
  • Stock preparation (500 ul) of [http://partsregistry.org/Part:I763034 I763034],[http://partsregistry.org/Part:BBa_I763031 I763031]+[http://partsregistry.org/Part:BBa_pSB4A3 pSB4A3] and [http://partsregistry.org/Part:BBa_I763032 I763032]+[http://partsregistry.org/Part:BBa_pSB4A3 pSB4A3].
  • Miniprep of [http://partsregistry.org/Part:BBa_I763034 I763034], [http://partsregistry.org/Part:BBa_I763031 I763031]+[http://partsregistry.org/Part:BBa_pSB4A3 pSB4A3] and [http://partsregistry.org/Part:BBa_I763032 I763032]+[http://partsregistry.org/Part:BBa_pSB4A3 pSB4A3].
  • Control digestion of:
-[http://partsregistry.org/Part:BBa_I763034 I763034] with Xba/Pst1;
-[http://partsregistry.org/Part:BBa_I763031 I763031] with Eco/Xba and Xba/Pst1;
-[http://partsregistry.org/Part:BBa_I763032 I763032] with Eco/Xba and Xba/Pst1.
  • Run on electrophoresis gel and [http://partsregistry.org/Part:BBa_I763032 I763032] (Eco/Xba and Xba/Pst1) band extraction.


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