Will Notebook2 - Revision history

Wideloache at 18:47, 5 May 2009

2009-05-05T18:47:57Z

Wideloache at 18:46, 5 May 2009

2009-05-05T18:46:23Z

Wideloache at 19:38, 30 April 2009

2009-04-30T19:38:49Z

Wideloache at 19:38, 30 April 2009

2009-04-30T19:38:15Z

Wideloache at 19:37, 30 April 2009

2009-04-30T19:37:57Z

Wideloache: /* Wideloache 23:12, 13 March 2009 (EST) */

2009-03-15T00:00:47Z

‎Wideloache 23:12, 13 March 2009 (EST)

Wideloache at 23:54, 14 March 2009

2009-03-14T23:54:49Z

Wideloache at 23:54, 14 March 2009

2009-03-14T23:54:40Z

Wideloache at 23:48, 14 March 2009

2009-03-14T23:48:48Z

Wideloache at 23:48, 14 March 2009

2009-03-14T23:48:25Z

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 ==[[User:Wideloache|Wideloache]] 15:37, 30 April 2009 (EDT)==
-Today I finished things up in the lab. I have posted my honors thesis online, and it can be viewed [http://www.bio.davidson.edu/courses/genomics/2008/DeLoache/HonorsThesis.pdf here]. I have also posted the powerpoint for my thesis defense. The powerpoint was made in Keynote. The Keynote version can be viewed [http://openwetware.org/images/b/ba/ThesisDefense.key here]. A converted powerpoint file can be downloaded [http://openwetware.org/images/b/ba/ThesisDefense.ppt here], although some of the slides are altered slightly.  The thesis contains analysis of relevant data and a general summary of all of my research. General files and resources related to my research can be found [[WillFiles|here]]. This includes data and protocols that were introduced to the lab during my project. Additionally, all sequencing results from my research can be found [[WillSequencing|here]]. Expected sequences of relevant parts are included in [http://gcat.davidson.edu/GcatWiki/images/5/50/WD_PartsList.xls this spreadsheet].
+Today I finished things up in the lab. I have posted my honors thesis online, and it can be viewed [http://www.bio.davidson.edu/courses/genomics/2008/DeLoache/HonorsThesis.pdf here]. The thesis contains analysis of relevant data and a general summary of all of my research. I have also posted the powerpoint for my thesis defense. The presentation was made in Keynote, but a converted powerpoint file can be downloaded [http://openwetware.org/images/b/ba/ThesisDefense.ppt here]. Note: some of the slides are altered slightly. General files and resources related to my research can be found [[WillFiles|here]]. This includes data and protocols that were introduced to the lab during my project. Additionally, all sequencing results from my research can be found [[WillSequencing|here]]. Expected sequences of relevant parts are included in [http://gcat.davidson.edu/GcatWiki/images/5/50/WD_PartsList.xls this spreadsheet].
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 ==[[User:Wideloache|Wideloache]] 15:37, 30 April 2009 (EDT)==
-Today I finished things up in the lab. I have posted my honors thesis online, and it can be viewed [http://www.bio.davidson.edu/courses/genomics/2008/DeLoache/HonorsThesis.pdf here]. The thesis contains analysis of relevant data and a general summary of all of my research. General files and resources related to my research can be found [[WillFiles|here]]. This includes data and protocols that were introduced to the lab during my project. Additionally, all sequencing results from my research can be found [[WillSequencing|here]]. Expected sequences of relevant parts are included in [http://gcat.davidson.edu/GcatWiki/images/5/50/WD_PartsList.xls this spreadsheet].
+Today I finished things up in the lab. I have posted my honors thesis online, and it can be viewed [http://www.bio.davidson.edu/courses/genomics/2008/DeLoache/HonorsThesis.pdf here]. I have also posted the powerpoint for my thesis defense. The powerpoint was made in Keynote. The Keynote version can be viewed [http://openwetware.org/images/b/ba/ThesisDefense.key here]. A converted powerpoint file can be downloaded [http://openwetware.org/images/b/ba/ThesisDefense.ppt here], although some of the slides are altered slightly.  The thesis contains analysis of relevant data and a general summary of all of my research. General files and resources related to my research can be found [[WillFiles|here]]. This includes data and protocols that were introduced to the lab during my project. Additionally, all sequencing results from my research can be found [[WillSequencing|here]]. Expected sequences of relevant parts are included in [http://gcat.davidson.edu/GcatWiki/images/5/50/WD_PartsList.xls this spreadsheet].
 === ===

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 ==[[User:Wideloache|Wideloache]] 15:37, 30 April 2009 (EDT)==
-Today I finished things up in the lab. I have posted my honors thesis online, and it can be viewed [http://www.bio.davidson.edu/courses/genomics/2008/DeLoache/HonorsThesis.pdf here]. The thesis contains the analysis of relevant data and a general summary of all of my research. General files and resources related to my research can be found [[WillFiles|here]]. This includes data and protocols that were introduced to the lab during my project. Additionally, all sequencing results from my research can be found [[WillSequencing|here]]. Expected sequences of relevant parts are included in [http://gcat.davidson.edu/GcatWiki/images/5/50/WD_PartsList.xls this spreadsheet].
+Today I finished things up in the lab. I have posted my honors thesis online, and it can be viewed [http://www.bio.davidson.edu/courses/genomics/2008/DeLoache/HonorsThesis.pdf here]. The thesis contains analysis of relevant data and a general summary of all of my research. General files and resources related to my research can be found [[WillFiles|here]]. This includes data and protocols that were introduced to the lab during my project. Additionally, all sequencing results from my research can be found [[WillSequencing|here]]. Expected sequences of relevant parts are included in [http://gcat.davidson.edu/GcatWiki/images/5/50/WD_PartsList.xls this spreadsheet].
 === ===

@@ Line 12: / Line 12: @@
 ==[[User:Wideloache|Wideloache]] 15:37, 30 April 2009 (EDT)==
-Today I finished things up in the lab. I have posted my honors thesis online, and it can be viewed [http://www.bio.davidson.edu/courses/genomics/2008/DeLoache/HonorsThesis.pdf here]. The thesis contains the analysis of relevant data and a general summary of all of my research. General files and resources related to my research can be found [[WillFiles|here]]. This includes data and protocols that were introduced to the lab during my project. Additonally, all sequencing results from my research can be found [[WillSequencing|here]]. Expected sequences of relevant parts are included in [http://gcat.davidson.edu/GcatWiki/images/5/50/WD_PartsList.xls this spreadsheet].
+Today I finished things up in the lab. I have posted my honors thesis online, and it can be viewed [http://www.bio.davidson.edu/courses/genomics/2008/DeLoache/HonorsThesis.pdf here]. The thesis contains the analysis of relevant data and a general summary of all of my research. General files and resources related to my research can be found [[WillFiles|here]]. This includes data and protocols that were introduced to the lab during my project. Additionally, all sequencing results from my research can be found [[WillSequencing|here]]. Expected sequences of relevant parts are included in [http://gcat.davidson.edu/GcatWiki/images/5/50/WD_PartsList.xls this spreadsheet].
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 [[Will_DeLoache Notebook|Back to Main Page]]
 ==[[User:Wideloache|Wideloache]] 19:54, 14 March 2009 (EDT)==

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 This left me with 19 AHL source conditions and 8 different receivers, a total of 152 conditions. I did this experiment in 2 96 well plates. The layout of the plates is given in the attached spreadsheet of [http://gcat.davidson.edu/GcatWiki/images/c/cb/FluorescenceExperiment.xls results].
-I filled each well with 200 uL of LB+Amp (LB only for wells containing MC4100). To get the proper concentrations of 3OC12 and 3OC6, I did a serial dilution from the stocks in the freezer. The target concentration (1X) from the literature was 10^-7 M for each autoinducer ([http://partsregistry.org/Part:BBa_F2620:Transfer_Function 3OC6 reference] and [http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=8278364 3OC12 reference]). I started with 10 mg/mL of stock solution and moved 3uL of stock into 3mL of LB+Amp to obtain a 500X solution. I then performed a serial dilution of this stock to get the other concentrations. Any time that I needed to add cells to a well, I added 10 uL of cells from liquid culture that had been grown to saturation O/N.
+I filled each well with 200 uL of LB+Amp (LB only for wells containing MC4100). To get the proper concentrations of 3OC12 and 3OC6, I did a serial dilution from the stocks in the freezer. The target concentration (1X) from the literature was 10^-7 M for each autoinducer ([http://partsregistry.org/Part:BBa_F2620:Transfer_Function 3OC6 reference] and [http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=8278364 3OC12 reference]). I started with 10 mg/mL of stock solution and moved 3uL of stock into 3mL of LB+Amp to obtain a 500X solution. (3OC6 MW: 213.23 g/mol; 3OC12 MW: 297.4 g/mol). I then performed a serial dilution of this stock to get the other concentrations. Any time that I needed to add cells to a well, I added 10 uL of cells from liquid culture that had been grown to saturation O/N.
 I waited 3 hours and 6 hours from the time of incubation to get fluorescence readings. I will also take another reading tomorrow morning. The results of this experiment can be found [http://gcat.davidson.edu/GcatWiki/images/c/cb/FluorescenceExperiment.xls here]:

@@ Line 39: / Line 39: @@
 This left me with 19 AHL source conditions and 8 different receivers, a total of 152 conditions. I did this experiment in 2 96 well plates. The layout of the plates is given in the attached spreadsheet of [http://gcat.davidson.edu/GcatWiki/images/c/cb/FluorescenceExperiment.xls|results].
-I filled each well with 200 uL of LB+Amp (LB only for wells containing MC4100). To get the proper concentrations of 3OC12 and 3OC6, I did a serial dilution from the stock. The target concentration (1X) from the literature was 10^-7 M for each autoinducer ([http://partsregistry.org/Part:BBa_F2620:Transfer_Function 3OC6 reference] and [http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=8278364 3OC12 reference])
+I filled each well with 200 uL of LB+Amp (LB only for wells containing MC4100). To get the proper concentrations of 3OC12 and 3OC6, I did a serial dilution from the stocks in the freezer. The target concentration (1X) from the literature was 10^-7 M for each autoinducer ([http://partsregistry.org/Part:BBa_F2620:Transfer_Function 3OC6 reference] and [http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=8278364 3OC12 reference]). I started with 10 mg/mL of stock solution and moved 3uL of stock into 3mL of LB+Amp to obtain a 500X solution. I then performed a serial dilution of this stock to get the other concentrations. Any time that I needed to add cells to a well, I added 10 uL of cells from liquid culture that had been grown to saturation O/N.
 === ===