Difference between revisions of "Team:William and Mary/Notebook"

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<div style = 'padding-left: 14%; padding-bottom: 10px;font-size: 25px' ><b>Week 1</b></div>
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<div style = 'padding-left: 14%; padding-bottom: 10px;font-size: 25px' ><b>Week 1: 180528 -180604</b></div>
 
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<div style = 'padding-left: 14%; padding-bottom: 10px;font-size: 25px' ><b>Week 2: 180604 -180610</b></div>
 
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<div style = 'padding-left: 14%; padding-bottom: 10px;font-size: 25px' ><b>Week 3</b></div>
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<div style = 'padding-left: 14%; padding-bottom: 10px;font-size: 25px' ><b>Week 3: 180611 -180617</b></div>
 
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</div>
  
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<div style='padding-top: 40px;'></div>
 +
 +
 +
<div style = 'padding-left: 14%; padding-bottom: 10px;font-size: 25px' ><b>Week 4: 180618 - 180624</b></div>
 +
<div style='background: #808080; margin: 0px 14% 20px 14%; height:1px;></div>
 +
<div style='padding-top: 0px;'></div>
 +
 +
 +
<div style = 'padding-right: 14%; padding-left: 14%; text-indent: 0px;line-height: 25px;'>
 +
<ul>
 +
<li>Microscopy training with Jacob Sawyer, advanced imaging specialist from Nikon</li>
 +
<li> Spin down inducer tests to see if we can remove inducer from media to create pulses</li>
 +
<li>Plate reader experiment of pulse timing in different conditions</li>
 +
<li> FACs experiment of how long cells can be incubated on ice without changing results</li>
 +
<li>  Decided to stop sequencing 3G parts and start functionally screening them instead</li>
 +
<li> Set up our first Golden Gate reaction</li>
 +
<li> Madilyn & Friends Outreach event</li>
 +
</ul>
 +
</div>
 +
 +
<div style='padding-top: 40px;'></div>
 +
 +
 +
<div style = 'padding-left: 14%; padding-bottom: 10px;font-size: 25px' ><b>Week 5: 180625 -180701</b></div>
 +
<div style='background: #808080; margin: 0px 14% 20px 14%; height:1px;></div>
 +
<div style='padding-top: 0px;'></div>
 +
 +
 +
<div style = 'padding-right: 14%; padding-left: 14%; text-indent: 0px;line-height: 25px;'>
 +
<ul>
 +
<li>Continue designing and building circuits</li>
 +
<li>Continue inducer spin down tests for plate reader experiment</li>
 +
<li>Reached out to St. Andrews to solidify collaboration partnership</li>
 +
<li>Considering alternatives for the inducer spin down tests due to multiple complications</li>
 +
<li>Looked into light-induced gene expression systems</li>
 +
<li>SEP 8th graders</li>
 +
</ul>
 +
</div>
 +
 +
 +
<div style='padding-top: 40px;'></div>
 +
 +
 +
<div style = 'padding-left: 14%; padding-bottom: 10px;font-size: 25px' ><b>Week 6: 180702 -180708</b></div>
 +
<div style='background: #808080; margin: 0px 14% 20px 14%; height:1px;></div>
 +
<div style='padding-top: 0px;'></div>
 +
 +
 +
<div style = 'padding-right: 14%; padding-left: 14%; text-indent: 0px;line-height: 25px;'>
 +
<ul>
 +
<li>Experienced some leakiness with our FACS machine, spent time fixing this</li>
 +
<li>Abandoned light-induced gene expression system, as it appears impractical in lab and less relevant to in vivo systems</li>
 +
<li> Began looking into temperature-induced circuits</li>
 +
<li>Continue inducer spin down tests</li>
 +
<li>Making different variants of the same circuit with different strength repressors</li>
 +
<li>Made and characterized Oscillator Circuit</li>
 +
<li>Cell sorting with GS, image dissociated cells on the slides</li>
 +
<li>Started Interlab Study measurements</li>
 +
</ul>
 +
</div>
 +
 +
<div style='padding-top: 40px;'></div>
 +
 +
 +
<div style = 'padding-left: 14%; padding-bottom: 10px;font-size: 25px' ><b>Week 7: 180709 -180715</b></div>
 +
<div style='background: #808080; margin: 0px 14% 20px 14%; height:1px;></div>
 +
<div style='padding-top: 0px;'></div>
 +
 +
 +
<div style = 'padding-right: 14%; padding-left: 14%; text-indent: 0px;line-height: 25px;'>
 +
<ul>
 +
<li>Successfully cloned our entire 3G library, except recently added parts</li>
 +
<li>Demonstrated cells can be frozen in 15% glycerol without changing results</li>
 +
<li>Successfully tested whether inducers can be removed from media</li>
 +
<li>Using parts from last year, tested an IFFL with a single 20 minute pulse</li>
 +
<li>Tested an IFFL with a single 40 minute pulse</li>
 +
<li>Began assembling and testing circuits utilizing temperature as an inducer (TS-C1 system)</li>
 +
<li>Attended the Mid-Atlantic Meetup hosted by University of Maryland</li>
 +
<li>Submitted Interlab measurements</li>
 +
</ul>
 +
</div>
 +
 +
 +
<div style='padding-top: 40px;'></div>
 +
 +
 +
<div style = 'padding-left: 14%; padding-bottom: 10px;font-size: 25px' ><b>Week 8: 180716 -180722</b></div>
 +
<div style='background: #808080; margin: 0px 14% 20px 14%; height:1px;></div>
 +
<div style='padding-top: 0px;'></div>
 +
 +
 +
<div style = 'padding-right: 14%; padding-left: 14%; text-indent: 0px;line-height: 25px;'>
 +
<ul>
 +
<li>Reached out to UVA for collaboration</li>
 +
<li>Continued with plate reader experiments</li>
 +
<li> Continued testing heat inducible circuits</li>
 +
<li>Cloned and transformed Oscillator parts for functional testing</li>
 +
<li>Medical Explorers Outreach Event Visit Day 1 and 2</li>
 +
<li>Building with Biology event</li>
 +
<li>Camp Launch</li>
 +
</ul>
 +
</div>
 +
 +
<div style='padding-top: 40px;'></div>
 +
 +
 +
<div style = 'padding-left: 14%; padding-bottom: 10px;font-size: 25px' ><b>Week 9: 180723 -180729</b></div>
 +
<div style='background: #808080; margin: 0px 14% 20px 14%; height:1px;></div>
 +
<div style='padding-top: 0px;'></div>
 +
 +
 +
<div style = 'padding-right: 14%; padding-left: 14%; text-indent: 0px;line-height: 25px;'>
 +
<ul>
 +
<li>Contacted University of Pittsburgh for collaboration</li>
 +
<li>Continued plate reader experiments</li>
 +
<li>Testing lower temperature inductions</li>
 +
<li>Successfully created working high copy inducible parts and possible working low copy parts</li>
 +
<li>Addressing  issues with microscopy</li>
 +
<li>Plus S Ice Cream and iGEM</li>
 +
</ul>
 +
</div>
 +
 +
 +
<div style='padding-top: 40px;'></div>
 +
 +
 +
<div style = 'padding-left: 14%; padding-bottom: 10px;font-size: 25px' ><b>Week 10: 180730 -180805</b></div>
 +
<div style='background: #808080; margin: 0px 14% 20px 14%; height:1px;></div>
 +
<div style='padding-top: 0px;'></div>
 +
 +
 +
<div style = 'padding-right: 14%; padding-left: 14%; text-indent: 0px;line-height: 25px;'>
 +
<ul>
 +
<li>Continuing plate reader experiments</li>
 +
<li>Interlab data got rejected due to accidentally switching the Od600 and fluorescence in the form. Minor issue, easily resolved and submitted</li>
 +
<li> Investigated parameters for oscillator</li>
 +
<li>Sent collaboration package to UVA and University of Pittsburgh</li>
 +
<li>Started considering clontegration and requisite parts and primers</li>
 +
<li>First MUN Meeting</li>
 +
</ul>
 +
</div>
 
</body>
 
</body>
 
</html>
 
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Revision as of 06:44, 17 October 2018

Notebook

Week 1: 180528 -180604
  • Began cloning 3G parts based off the library sent from the Murray lab
  • Researched literature on dual inducible promoters
  • Sent out several cloned 3G parts for sequencing
  • Planned out several IFFLs to test.
Week 2: 180604 -180610
  • Continued cloning 3G parts onto our standard WM Pad backbone
  • Redesigned primers for cloning 3G promoter parts, as previous ones were faulty
  • Received results from sequencing, confirmed parts
  • Beginning to assemble circuits using 3G assembly
  • Making inducible reporter construct and an mf-Lon based IFFL
Week 3: 180611 -180617
  • Completed cloning the portion of our comprehensive 3G assembly part library needed for our circuits
  • Adding remaining 3G parts from Murray’s lab to our library
  • Working on designing and building a dual inducible promoter and low copy backbone for assembly
  • Confirmed minipreps based on sequencing results
  • Started plate reader for experiments on circuits with IPTG and ATC inducer
  • Started using FACS machine for experiments
Week 4: 180618 - 180624
  • Microscopy training with Jacob Sawyer, advanced imaging specialist from Nikon
  • Spin down inducer tests to see if we can remove inducer from media to create pulses
  • Plate reader experiment of pulse timing in different conditions
  • FACs experiment of how long cells can be incubated on ice without changing results
  • Decided to stop sequencing 3G parts and start functionally screening them instead
  • Set up our first Golden Gate reaction
  • Madilyn & Friends Outreach event
Week 5: 180625 -180701
  • Continue designing and building circuits
  • Continue inducer spin down tests for plate reader experiment
  • Reached out to St. Andrews to solidify collaboration partnership
  • Considering alternatives for the inducer spin down tests due to multiple complications
  • Looked into light-induced gene expression systems
  • SEP 8th graders
Week 6: 180702 -180708
  • Experienced some leakiness with our FACS machine, spent time fixing this
  • Abandoned light-induced gene expression system, as it appears impractical in lab and less relevant to in vivo systems
  • Began looking into temperature-induced circuits
  • Continue inducer spin down tests
  • Making different variants of the same circuit with different strength repressors
  • Made and characterized Oscillator Circuit
  • Cell sorting with GS, image dissociated cells on the slides
  • Started Interlab Study measurements
Week 7: 180709 -180715
  • Successfully cloned our entire 3G library, except recently added parts
  • Demonstrated cells can be frozen in 15% glycerol without changing results
  • Successfully tested whether inducers can be removed from media
  • Using parts from last year, tested an IFFL with a single 20 minute pulse
  • Tested an IFFL with a single 40 minute pulse
  • Began assembling and testing circuits utilizing temperature as an inducer (TS-C1 system)
  • Attended the Mid-Atlantic Meetup hosted by University of Maryland
  • Submitted Interlab measurements
Week 8: 180716 -180722
  • Reached out to UVA for collaboration
  • Continued with plate reader experiments
  • Continued testing heat inducible circuits
  • Cloned and transformed Oscillator parts for functional testing
  • Medical Explorers Outreach Event Visit Day 1 and 2
  • Building with Biology event
  • Camp Launch
Week 9: 180723 -180729
  • Contacted University of Pittsburgh for collaboration
  • Continued plate reader experiments
  • Testing lower temperature inductions
  • Successfully created working high copy inducible parts and possible working low copy parts
  • Addressing issues with microscopy
  • Plus S Ice Cream and iGEM
Week 10: 180730 -180805
  • Continuing plate reader experiments
  • Interlab data got rejected due to accidentally switching the Od600 and fluorescence in the form. Minor issue, easily resolved and submitted
  • Investigated parameters for oscillator
  • Sent collaboration package to UVA and University of Pittsburgh
  • Started considering clontegration and requisite parts and primers
  • First MUN Meeting