Team:Purdue/Notebook

From 2012.igem.org

(Difference between revisions)
(→Monday, May 21)
Line 12: Line 12:
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.
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.
 +
 +
== Monday, May 15 ==
 +
15 May 2012
 +
 +
1. List of useful contacts on the google doc, including DowAgro
 +
 +
2. Begin to list the different devices/constructs that will be used in our project
 +
        a.  Attachment (adhesion)
 +
        b. Filtration
 +
              i. Modularize the sequence so we can test individually (e.g. but GFP, RFP, YFP at the end of
 +
                        each segment – construct silica binding protein first with constitutive promoter/repressible
 +
                        promoter to produce promoter and make sure it does what you think it should)
 +
              ii. Investigate multiple silica binding protein (surface protein – silica binding peptide);
 +
                        must choose several top candidates for each element and
 +
        c. Hierarchy
 +
        d. Perfecting the FFL
 +
              i. And (low affinity, not dimer), Or (high affinity)
 +
3. Modeling and Experimental
 +
      a. Communication in terms of data (e.g.  kinetic parameters)
 +
      b. Review Characterization Data Sheets (look in the DropBox for an uploaded link from Sean )
 +
      c. Strong integration of modeling translates to a strong performance in the competition
 +
 +
4. List of things we need
 +
      a. Competent Cells (Laris Avramova (core molecular biologist, 222), Tarun (electron microscopy)
 +
                may have the needed cells)
 +
      b. Antibiotics (AMP, tetracycline,
 +
      c. Enzymes (Pst1, Xba1, EcoR1, Spe1, Ligase, polymerase/PCR reagents, T5exonuclease )
 +
      d. Parts (available in the registry)
 +
                i. Constitutive promoter (orthogonal t7 promoter)
 +
                ii. Signaling Promoters (investigate the precedent for construction FFL)
 +
      e. RBS –(B0034)
 +
                i. Thermodynamic models for designing RBSs, etc (Voights model)
 +
      f. Terminators
 +
      g. Proteins Transcription Factors
 +
== Monday, May 21 ==
== Monday, May 21 ==
Line 20: Line 55:
* First Journal Club Meeting - Identified the reducible elements of our system
* First Journal Club Meeting - Identified the reducible elements of our system
* Detailed outline of the project to the SURF students
* Detailed outline of the project to the SURF students
 +
:* ''What is the advantage of using this entire process? Is not it kind of roundabout?''
:* ''What is the advantage of using this entire process? Is not it kind of roundabout?''

Revision as of 18:45, 29 May 2012

Home Team Official Team Profile Project Parts Submitted to the Registry Modeling Notebook Safety Attributions

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.

Monday, May 15

15 May 2012

1. List of useful contacts on the google doc, including DowAgro

2. Begin to list the different devices/constructs that will be used in our project 

       a.  	Attachment (adhesion)
       b.	Filtration
              i.	Modularize the sequence so we can test individually (e.g. but GFP, RFP, YFP at the end of
                       each segment – construct silica binding protein first with constitutive promoter/repressible
                       promoter to produce promoter and make sure it does what you think it should)
              ii.	Investigate multiple silica binding protein (surface protein – silica binding peptide);
                       must choose several top candidates for each element and 
       c.	Hierarchy
       d.	Perfecting the FFL
              i.	And (low affinity, not dimer), Or (high affinity)

3. Modeling and Experimental 

      a.	Communication in terms of data (e.g.  kinetic parameters)
      b.	Review Characterization Data Sheets (look in the DropBox for an uploaded link from Sean )
      c.	Strong integration of modeling translates to a strong performance in the competition

4. List of things we need 

      a.	Competent Cells (Laris Avramova (core molecular biologist, 222), Tarun (electron microscopy) 
                may have the needed cells)
      b.	Antibiotics (AMP, tetracycline, 
      c.	Enzymes (Pst1, Xba1, EcoR1, Spe1, Ligase, polymerase/PCR reagents, T5exonuclease )
      d.	Parts (available in the registry)
               i.	Constitutive promoter (orthogonal t7 promoter)
               ii.	Signaling Promoters (investigate the precedent for construction FFL)
      e.	RBS –(B0034)
               i.	Thermodynamic models for designing RBSs, etc (Voights model)
      f.	Terminators
      g.	Proteins Transcription Factors


Monday, May 21

  • We're all looking forward to an exciting iGEM summer! Our SURF students have just arrived and are gradually being introduced to synthetic biology and iGEM.
  • Sean gave a crash course on synthetic biology to Mrudula, Rachel, Amanda and August. The powerpoint is available here, compiled by our wonderful graduate mentor, Janie.

Tuesday, May 22

  • First Journal Club Meeting - Identified the reducible elements of our system
  • Detailed outline of the project to the SURF students
  • What is the advantage of using this entire process? Is not it kind of roundabout?
Retrieved from "http://2012.igem.org/Team:Purdue/Notebook"