Imperial College/24 September 2008

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{{Imperial/StartPage}}__NOTOC__
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{| cellpadding="10" border="0"
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|- valign="top"
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|{{#calendar: title=Imperial_College |year=2008 | month=08}}
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|{{#calendar: title=Imperial_College |year=2008 | month=09}}
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|{{#calendar: title=Imperial_College |year=2008 | month=10}}
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| rowspan="2" bgcolor=#ffffff width="100%" |
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|}
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=24 September 2008=
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==Wet Lab==
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===Miniprep===
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*8 Minipreps were carried out for samples G7-1, G7-2, G8-1, G9-1, G9-3, G10-3, G11-2 and G11-3
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===Miniprep Digestion===
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*All the mini-preps were digested with ''Eco''RI and ''Pst''I
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[[Image:24-9minidig.png|thumb|center|700px| U = undigested, D = digested]]
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*All digested bands appear to be approximately the right size, no trace of contamiantion beyond occaisonal bits of denatured DNA
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*Minipreps of PgsiB-gsiB, PgsiB-spoVG and Pveg-spoVG were digested with ''Eco''RI and ''Pst''I and run on a gel along with uncut DNA from the minipreps of GeneArt constructs 4 and 5
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[[Image:24-9minidig2.png|thumb|center|700px| U = undigested, D = digested]]
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*The sizes of inserts for PgsiB-gsiB and PgsiB-spoVG appear correct and the mini-preps seem fairly pure. No insert was cut from the Pveg-spoVG minipreps and they will need to be re-ligated for transformation
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==Dry Lab==
==Dry Lab==
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*Example is shown with 100908 Video 15 Cell 6. Notice that the model for a single run does not fit the data properly. Hence we introduce a change in orientation (parameters) at frame 75. This results in two separate runs, each with its respective set of parameters A, B and alpha.
*Example is shown with 100908 Video 15 Cell 6. Notice that the model for a single run does not fit the data properly. Hence we introduce a change in orientation (parameters) at frame 75. This results in two separate runs, each with its respective set of parameters A, B and alpha.
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[[Image:V15Cell6.jpg|center|200px]] [[Image:V15Cell6(2).jpg|center|200px]]
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<center>[[Image:V15Cell6.jpg|400px|Single Run]] [[Image:V15Cell6(2).jpg|400px|Two Runs]]</center>
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<br>
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{{Imperial/EndPage|Notebook|Notebook}}

Latest revision as of 20:49, 28 October 2008

August
MTWTFSS
        [http://2008.igem.org/Imperial_College/1_August_2008 1] [http://2008.igem.org/Imperial_College/2_August_2008 2] [http://2008.igem.org/wiki/index.php?title=Imperial_College/3_August_2008&action=edit 3]
[http://2008.igem.org/Imperial_College/4_August_2008 4] [http://2008.igem.org/Imperial_College/5_August_2008 5] [http://2008.igem.org/wiki/index.php?title=Imperial_College/6_August_2008&action=edit 6] [http://2008.igem.org/Imperial_College/7_August_2008 7] [http://2008.igem.org/Imperial_College/8_August_2008 8] [http://2008.igem.org/wiki/index.php?title=Imperial_College/9_August_2008&action=edit 9] [http://2008.igem.org/Imperial_College/10_August_2008 10]
[http://2008.igem.org/Imperial_College/11_August_2008 11] [http://2008.igem.org/Imperial_College/12_August_2008 12] [http://2008.igem.org/Imperial_College/13_August_2008 13] [http://2008.igem.org/Imperial_College/14_August_2008 14] [http://2008.igem.org/Imperial_College/15_August_2008 15] [http://2008.igem.org/Imperial_College/16_August_2008 16] [http://2008.igem.org/Imperial_College/17_August_2008 17]
[http://2008.igem.org/Imperial_College/18_August_2008 18] [http://2008.igem.org/Imperial_College/19_August_2008 19] [http://2008.igem.org/Imperial_College/20_August_2008 20] [http://2008.igem.org/Imperial_College/21_August_2008 21] [http://2008.igem.org/Imperial_College/22_August_2008 22] [http://2008.igem.org/wiki/index.php?title=Imperial_College/23_August_2008&action=edit 23] [http://2008.igem.org/Imperial_College/24_August_2008 24]
[http://2008.igem.org/Imperial_College/25_August_2008 25] [http://2008.igem.org/Imperial_College/26_August_2008 26] [http://2008.igem.org/Imperial_College/27_August_2008 27] [http://2008.igem.org/Imperial_College/28_August_2008 28] [http://2008.igem.org/Imperial_College/29_August_2008 29] [http://2008.igem.org/wiki/index.php?title=Imperial_College/30_August_2008&action=edit 30] [http://2008.igem.org/Imperial_College/31_August_2008 31]
September
MTWTFSS
[http://2008.igem.org/Imperial_College/1_September_2008 1] [http://2008.igem.org/Imperial_College/2_September_2008 2] [http://2008.igem.org/Imperial_College/3_September_2008 3] [http://2008.igem.org/Imperial_College/4_September_2008 4] [http://2008.igem.org/Imperial_College/5_September_2008 5] [http://2008.igem.org/wiki/index.php?title=Imperial_College/6_September_2008&action=edit 6] [http://2008.igem.org/Imperial_College/7_September_2008 7]
[http://2008.igem.org/Imperial_College/8_September_2008 8] [http://2008.igem.org/Imperial_College/9_September_2008 9] [http://2008.igem.org/Imperial_College/10_September_2008 10] [http://2008.igem.org/Imperial_College/11_September_2008 11] [http://2008.igem.org/Imperial_College/12_September_2008 12] [http://2008.igem.org/wiki/index.php?title=Imperial_College/13_September_2008&action=edit 13] [http://2008.igem.org/wiki/index.php?title=Imperial_College/14_September_2008&action=edit 14]
[http://2008.igem.org/Imperial_College/15_September_2008 15] [http://2008.igem.org/Imperial_College/16_September_2008 16] [http://2008.igem.org/Imperial_College/17_September_2008 17] [http://2008.igem.org/Imperial_College/18_September_2008 18] [http://2008.igem.org/Imperial_College/19_September_2008 19] [http://2008.igem.org/wiki/index.php?title=Imperial_College/20_September_2008&action=edit 20] [http://2008.igem.org/wiki/index.php?title=Imperial_College/21_September_2008&action=edit 21]
[http://2008.igem.org/Imperial_College/22_September_2008 22] [http://2008.igem.org/Imperial_College/23_September_2008 23] [http://2008.igem.org/Imperial_College/24_September_2008 24] [http://2008.igem.org/Imperial_College/25_September_2008 25] [http://2008.igem.org/Imperial_College/26_September_2008 26] [http://2008.igem.org/wiki/index.php?title=Imperial_College/27_September_2008&action=edit 27] [http://2008.igem.org/wiki/index.php?title=Imperial_College/28_September_2008&action=edit 28]
[http://2008.igem.org/Imperial_College/29_September_2008 29] [http://2008.igem.org/Imperial_College/30_September_2008 30]
October
MTWTFSS
    [http://2008.igem.org/Imperial_College/1_October_2008 1] [http://2008.igem.org/Imperial_College/2_October_2008 2] [http://2008.igem.org/wiki/index.php?title=Imperial_College/3_October_2008&action=edit 3] [http://2008.igem.org/wiki/index.php?title=Imperial_College/4_October_2008&action=edit 4] [http://2008.igem.org/wiki/index.php?title=Imperial_College/5_October_2008&action=edit 5]
[http://2008.igem.org/wiki/index.php?title=Imperial_College/6_October_2008&action=edit 6] [http://2008.igem.org/Imperial_College/7_October_2008 7] [http://2008.igem.org/wiki/index.php?title=Imperial_College/8_October_2008&action=edit 8] [http://2008.igem.org/Imperial_College/9_October_2008 9] [http://2008.igem.org/wiki/index.php?title=Imperial_College/10_October_2008&action=edit 10] [http://2008.igem.org/wiki/index.php?title=Imperial_College/11_October_2008&action=edit 11] [http://2008.igem.org/wiki/index.php?title=Imperial_College/12_October_2008&action=edit 12]
[http://2008.igem.org/Imperial_College/13_October_2008 13] [http://2008.igem.org/wiki/index.php?title=Imperial_College/14_October_2008&action=edit 14] [http://2008.igem.org/Imperial_College/15_October_2008 15] [http://2008.igem.org/Imperial_College/16_October_2008 16] [http://2008.igem.org/Imperial_College/17_October_2008 17] [http://2008.igem.org/wiki/index.php?title=Imperial_College/18_October_2008&action=edit 18] [http://2008.igem.org/wiki/index.php?title=Imperial_College/19_October_2008&action=edit 19]
[http://2008.igem.org/wiki/index.php?title=Imperial_College/20_October_2008&action=edit 20] [http://2008.igem.org/wiki/index.php?title=Imperial_College/21_October_2008&action=edit 21] [http://2008.igem.org/wiki/index.php?title=Imperial_College/22_October_2008&action=edit 22] [http://2008.igem.org/wiki/index.php?title=Imperial_College/23_October_2008&action=edit 23] [http://2008.igem.org/wiki/index.php?title=Imperial_College/24_October_2008&action=edit 24] [http://2008.igem.org/wiki/index.php?title=Imperial_College/25_October_2008&action=edit 25] [http://2008.igem.org/wiki/index.php?title=Imperial_College/26_October_2008&action=edit 26]
[http://2008.igem.org/wiki/index.php?title=Imperial_College/27_October_2008&action=edit 27] [http://2008.igem.org/wiki/index.php?title=Imperial_College/28_October_2008&action=edit 28] [http://2008.igem.org/wiki/index.php?title=Imperial_College/29_October_2008&action=edit 29] [http://2008.igem.org/wiki/index.php?title=Imperial_College/30_October_2008&action=edit 30] [http://2008.igem.org/wiki/index.php?title=Imperial_College/31_October_2008&action=edit 31]

24 September 2008

Wet Lab

Miniprep

  • 8 Minipreps were carried out for samples G7-1, G7-2, G8-1, G9-1, G9-3, G10-3, G11-2 and G11-3

Miniprep Digestion

  • All the mini-preps were digested with EcoRI and PstI
U = undigested, D = digested
  • All digested bands appear to be approximately the right size, no trace of contamiantion beyond occaisonal bits of denatured DNA
  • Minipreps of PgsiB-gsiB, PgsiB-spoVG and Pveg-spoVG were digested with EcoRI and PstI and run on a gel along with uncut DNA from the minipreps of GeneArt constructs 4 and 5
U = undigested, D = digested
  • The sizes of inserts for PgsiB-gsiB and PgsiB-spoVG appear correct and the mini-preps seem fairly pure. No insert was cut from the Pveg-spoVG minipreps and they will need to be re-ligated for transformation

Dry Lab

Modelling Motility

  • Managed to run trajectory modelling on 90 cells yesterday.
  • Manual segmentation of runs done today to obtain a better curve fit. Hence certain cells will have two or more runs, and two or more parameter sets respectively.
  • Example is shown with 100908 Video 15 Cell 6. Notice that the model for a single run does not fit the data properly. Hence we introduce a change in orientation (parameters) at frame 75. This results in two separate runs, each with its respective set of parameters A, B and alpha.
Single Run Two Runs
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