Team:Baltimore/Notebook

From 2011.igem.org

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<!-- *** What falls between these lines is the Alert Box!  You can remove it from your pages once you have read and understood the alert *** -->
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<!--- The Mission, Experiments --->
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==Notebook==  
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<div id="box" style="width: 700px; margin-left: 137px; padding: 5px; border: 3px solid #000; background-color: #fe2b33;">
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For more information about the project click [[Dr. Tom's Notes]]
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<div id="template" style="text-align: center; font-weight: bold; font-size: large; color: #f6f6f6; padding: 5px;">
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This is a template page. READ THESE INSTRUCTIONS.
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</div>
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<div id="instructions" style="text-align: center; font-weight: normal; font-size: small; color: #f6f6f6; padding: 5px;">
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You are provided with this team page template with which to start the iGEM season.  You may choose to personalize it to fit your team but keep the same "look." Or you may choose to take your team wiki to a different level and design your own wiki.  You can find some examples <a href="https://2008.igem.org/Help:Template/Examples">HERE</a>.
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</div>
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<div id="warning" style="text-align: center; font-weight: bold; font-size: small; color: #f6f6f6; padding: 5px;">
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You <strong>MUST</strong> have a team description page, a project abstract, a complete project description, a lab notebook, and a safety page. PLEASE keep all of your pages within your teams namespace. 
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<!-- *** End of the alert box *** -->
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Run through for abstract and scheduling:
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Start with plasmid with taq gene and pst1 site
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{|align="justify"
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Remove pst1 site from taq coding sequence
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|You can write a background of your team here.  Give us a background of your team, the members, etc.  Or tell us more about something of your choosing.
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|[[Image:Baltimore_logo.png|200px|right|frame]]
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|-
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''Tell us more about your project.  Give us background.  Use this is the abstract of your project.  Be descriptive but concise (1-2 paragraphs)''
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|[[Image:Baltimore_team.png|right|frame|Your team picture]]
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|-
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|align="center"|[[Team:Baltimore | Team Example]]
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|}
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<!--- The Mission, Experiments --->
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* In order to remove the restriction site, do site directed mutagenesis (1day)
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* PCR 
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* Digestion
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* [[Team:Baltimore/Notebook/Transformation | Transformation]]
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* Screening (1day)
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** Dilute DNA
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** Colony PCR individually
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** Digestion of PCR product with pst1
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** Run gel ~2500bp
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Add biobrick prefix/suffix to taq coding sequence
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* PCR and add the prefix and suffix as primers (one prefix has an extra AG-make sure to use the correct one) (1-2 days)
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** Run gel
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** Cut out of gel
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* Cut with restriction enzyme
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* Clean up DNA
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* Ligation with vector (could be vector with the terminator sequence, promoter and RBS)
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* Transformation
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[[Team:Baltimore/Notebook/bb_assemblies| Add a promoter, transcriptional terminator, ribosome binding site (RBS)]]
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* Screen colonies (1 day)
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** Colony PCR
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** Restriction Digestion
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** Clean up DNA
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* Sequence (1 day)
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Make taq protein
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Compare it to other enzymes and make sure it works
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===Calendar===
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----
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====July====
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'''Week 1:'''  [[Thursday, July 7]];
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'''Week 2:'''  [[Tuesday, July 12]];  [[Wednesday, July 13]];  [[Thursday, July 14]];  [[Friday, July 15]];  [[Saturday, July 16]];  [[Sunday, July 17]];
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'''Week 3:'''  [[Tuesday, July 19]];  [[Wednesday, July 20]];  [[Thursday, July 21]];  [[Friday, July 22]];  [[Saturday, July 23]];  [[Sunday, July 24]];
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'''Week 4:'''  [[Tuesday, July 26]];  [[Wednesday, July 27]];  [[Thursday, July 28]];  [[Friday, July 29]];  [[Saturday, July 30]];  [[Sunday, July 31]];
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====August====
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'''Week 1:'''    [[Tuesday, August 2]];  [[Wednesday, August 3]];  [[Thursday, August 4]];  [[Friday, August 5]];  [[Saturday, August 6]];  [[Sunday, August 7]];
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'''Week 2:'''    Week Off
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'''Week 3:'''    [[Tuesday, August 16]];  [[Wednesday, August 17]];  [[Thursday, August 18]];  [[Friday, August 19]];  [[Saturday, August 20]];  [[Sunday, August 21]];
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Beginning in Week 4, we will be tightening up our iGEM ship for a multitude of reasons. READ the [[New Rules]].
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'''Week 4:'''    [[Tuesday, August 23]];  [[Wednesday, August 24]];  [[Thursday, August 25]];  [[Friday, August 26]];  [[Saturday, August 27]];  [[Sunday, August 28]];
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'''Week 5:'''    [[Tuesday, August 30]];  [[Wednesday, August 31]];
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====September====
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'''Week 1:'''    [[Thursday, September 1]];  [[Friday, September 2]];  [[Saturday, September 3]];  [[Sunday, September 4]];
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{| style="color:#1b2c8a;background-color:#0c6;" cellpadding="3" cellspacing="1" border="1" bordercolor="#fff" width="62%" align="center"
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'''Week 2:''' [[Tuesday, September 6]]; [[Thursday, September 8]]; [[Friday, September 9]];  [[Saturday, September 10]];  [[Sunday, September 11]];
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!align="center"|[[Team:Baltimore|Home]]
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!align="center"|[[Team:Baltimore/Team|Team]]
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!align="center"|[https://igem.org/Team.cgi?year=2010&team_name=Baltimore Official Team Profile]
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!align="center"|[[Team:Baltimore/Project|Project]]
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!align="center"|[[Team:Baltimore/Parts|Parts Submitted to the Registry]]
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!align="center"|[[Team:Baltimore/Modeling|Modeling]]
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!align="center"|[[Team:Baltimore/Notebook|Notebook]]
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!align="center"|[[Team:Baltimore/Safety|Safety]]
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!align="center"|[[Team:Baltimore/Attributions|Attributions]]
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|}
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'''Week 3:''' [[Tuesday, September 13]]; [[Thursday, September 15]]; [[Friday, September 16]];  [[Saturday, September 17]];  [[Sunday, September 18]];
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==Notebook==
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'''Week 4:''' [[Tuesday, September 20]]; [[Thursday, September 22]]; [[Friday, September 23]];  [[Saturday, September 24]];  [[Sunday, September 25]];
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You should make use of the calendar feature on the wiki and start a lab notebook.  This may be looked at by the judges to see how your work progressed throughout the summer.  It is a very useful organizational tool as well.
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'''Week 5:''' [[Tuesday, September 27]]; [[Wednesday, September 28]]; [[ Thursday, September 29 - DEADLINE FOR EVERYTHING]];

Latest revision as of 17:47, 25 September 2011

Home Team Project Parts Submitted to the Registry Modeling Notebook Solutions Safety Attributions Hardware Material Safety Data Sheets [http://partsregistry.org/assembly/libraries.cgi?id=35|MIT Parts Registry]

Contents

Notebook

For more information about the project click Dr. Tom's Notes

Run through for abstract and scheduling:

Start with plasmid with taq gene and pst1 site

Remove pst1 site from taq coding sequence

  • In order to remove the restriction site, do site directed mutagenesis (1day)
  • PCR
  • Digestion
  • Transformation
  • Screening (1day)
    • Dilute DNA
    • Colony PCR individually
    • Digestion of PCR product with pst1
    • Run gel ~2500bp

Add biobrick prefix/suffix to taq coding sequence

  • PCR and add the prefix and suffix as primers (one prefix has an extra AG-make sure to use the correct one) (1-2 days)
    • Run gel
    • Cut out of gel
  • Cut with restriction enzyme
  • Clean up DNA
  • Ligation with vector (could be vector with the terminator sequence, promoter and RBS)
  • Transformation

Add a promoter, transcriptional terminator, ribosome binding site (RBS)

  • Screen colonies (1 day)
    • Colony PCR
    • Restriction Digestion
    • Clean up DNA
  • Sequence (1 day)

Make taq protein

Compare it to other enzymes and make sure it works

Calendar

July

Week 1: Thursday, July 7;

Week 2: Tuesday, July 12; Wednesday, July 13; Thursday, July 14; Friday, July 15; Saturday, July 16; Sunday, July 17;

Week 3: Tuesday, July 19; Wednesday, July 20; Thursday, July 21; Friday, July 22; Saturday, July 23; Sunday, July 24;

Week 4: Tuesday, July 26; Wednesday, July 27; Thursday, July 28; Friday, July 29; Saturday, July 30; Sunday, July 31;

August

Week 1: Tuesday, August 2; Wednesday, August 3; Thursday, August 4; Friday, August 5; Saturday, August 6; Sunday, August 7;

Week 2: Week Off

Week 3: Tuesday, August 16; Wednesday, August 17; Thursday, August 18; Friday, August 19; Saturday, August 20; Sunday, August 21;

Beginning in Week 4, we will be tightening up our iGEM ship for a multitude of reasons. READ the New Rules.

Week 4: Tuesday, August 23; Wednesday, August 24; Thursday, August 25; Friday, August 26; Saturday, August 27; Sunday, August 28;

Week 5: Tuesday, August 30; Wednesday, August 31;

September

Week 1: Thursday, September 1; Friday, September 2; Saturday, September 3; Sunday, September 4;

Week 2: Tuesday, September 6; Thursday, September 8; Friday, September 9; Saturday, September 10; Sunday, September 11;

Week 3: Tuesday, September 13; Thursday, September 15; Friday, September 16; Saturday, September 17; Sunday, September 18;

Week 4: Tuesday, September 20; Thursday, September 22; Friday, September 23; Saturday, September 24; Sunday, September 25;

Week 5: Tuesday, September 27; Wednesday, September 28; Thursday, September 29 - DEADLINE FOR EVERYTHING;

Retrieved from "http://2011.igem.org/Team:Baltimore/Notebook"