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Team:TU-Eindhoven/Notebook
From 2013.igem.org
(Difference between revisions)
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''Drylab'' | ''Drylab'' | ||
* Sensitivity analysis of the merged model | * Sensitivity analysis of the merged model | ||
| - | * Estimating | + | * Estimating promoter rates |
* Working on the pharmacokynetics model | * Working on the pharmacokynetics model | ||
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* Small cultures | * Small cultures | ||
* Miniprepping | * Miniprepping | ||
| - | * Preparing the BioBricks for | + | * Preparing the BioBricks for shipment to Boston |
* Making of samples for sequencing | * Making of samples for sequencing | ||
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* Preparing the BioBricks for shipment once more due to an external issue with the shipment of the BioBricks | * Preparing the BioBricks for shipment once more due to an external issue with the shipment of the BioBricks | ||
* Culturing bacteria | * Culturing bacteria | ||
| - | * Prepare bacteria for electroporation and electroporation | + | * Prepare bacteria for electroporation and perform electroporation |
* Creating small samples | * Creating small samples | ||
* Preparing LB medium | * Preparing LB medium | ||
Revision as of 00:01, 19 October 2013
In this section you can find a small description of all the work we have done so far organized by the category it belongs to. For the journal of the wet lab, see our Lab Journal page.
Feb-Apr
- Background research
- Selection of topic
- Further research
- Selection of project
- Further research
May
General Activities
- Regular team meeting
- Looking for sponsors
- Month planning
Wetlab
- Researching about the promoters
- Researching about the possible proteins for CEST imaging
Drylab
- Defining what needs to be modeled and what type of model is the most appropriate for it
General Activities
- Regular team meeting
- Looking for sponsors
Wetlab
- Researching and defining the killing mechanism
Drylab
- Starting the Molecular Dynamics model for the proteins selection.
General Activities
- Regular team meeting
- Looking for sponsors
Wetlab
- Defining the needed materials
- Defining the needed equipment
Drylab
- Continuing the Molecular Dynamics model for the proteins selection.
General Activities
- Regular team meeting
- Looking for sponsors
Wetlab
- Locating, booking and learning how to use the necessary equipment
Drylab
- Analyzing the results from the Molecular Dynamics model for the proteins selection and identifying the most useful proteins for CEST imaging
- Researching and defining the needed parameters for the analysis of the decoy sites through a stochastic simulations model
Human Practices
- Selecting a main project
General Activities
- Regular team meeting
- Looking for sponsors
Wetlab
- Locating, booking and learning how to use the necessary equipment
Drylab
- Starting the stochastic simulations for the analysis of the decoy sites
Human Practices
- Selecting a main project
June
General Activities
- Regular team meeting
- Looking for sponsors
- Collaborating with Purdue iGEM team
- Planning month activities
Wetlab
- General construct design
Drylab
- Continuing the stochastic simulations for the analysis of the decoy sites
Human Practices
- Defining the structure of the fact checker project
General Activities
- Regular team meeting
- Looking for sponsors
Wetlab
- Protein design
Drylab
- Continuing the stochastic simulations for the analysis of the decoy sites
Human Practices
- Redacting the preliminary description and survey for collaborators of the fact checker project
General Activities
- Regular team meeting
- Looking for sponsors
Wetlab
- Final design of the constructs
Drylab
- Continuing the stochastic simulations for the analysis of the decoy sites
Human Practices
- Revising the preliminary description and survey for collaborators of the fact checker project
General Activities
- Regular team meeting
- Looking for sponsors
Wetlab
- Ordering the constructs
- Working on the protocols
Drylab
- Analyzing the results from the stochastic simulations for the analysis of the decoy sites
Human Practices
- Researching for facts and myths related to Synthetic Biology to be checked
July
General Activities
- Regular team meeting
- Looking for sponsors
- Planning month activities
Wetlab
- Finalizing the protocols
- Planning lab schedule
Drylab
- Starting the ODE model for the analysis of the FNR promoter
Human Practices
- Researching for facts and myths related to Synthetic Biology to be checked
General Activities
- Regular team meeting
- Looking for sponsors
- Collaborating with Purdue iGEM team
Drylab
- Continuing the ODE model for the analysis of the FNR promoter
Human Practices
- Researching for facts and myths related to Synthetic Biology to be checked
General Activities
- Regular team meetings
- Looking for sponsors
- Collaborating with Purdue iGEM team
Wetlab
- Creating agar plates
- Transforming DNA
- Plating bacteria
- Making LB medium
- Creating small cultures
- DNA retention from cultures
- Nano-drop tests
Drylab
- Analyzing the results from the ODE model for the analysis of the FNR promoter
Human Practices
- Researching for facts and myths related to Synthetic Biology to be checked
- Sending the survey to collaborators
General Activities
- Regular team meetings
- Looking for sponsors
Wetlab
- Creating agar plates
- Transforming DNA
- Plating bacteria
- Making LB medium
- Creating small cultures
- DNA retention from cultures
- Nano-drop tests
Drylab
- Merging the stochastic simulations model for the decoy sites with the ODE model for the FNR promoter
Human Practices
- Researching for facts and myths related to Synthetic Biology to be checked
August
General Activities
- Regular team meetings
- Looking for sponsors
- Working on outreach ideas
Wetlab
- Creating the Cultures
- Retaining the DNA
- Nanodrop Test
Drylab
- Merging the stochastic simulations model for the decoy sites with the ODE model for the FNR promoter
- Working on the pharmacokynetics model
Human Practices
- Researching for facts and myths related to Synthetic Biology to be checked
- Working on the fact checker web platform
- Redacting the first facts to be added on our fact checker platform
General Activities
- Regular team meetings
- Looking for sponsors
- Working on outreach ideas
Wetlab
- Creating the cultures
- Retaining the DNA
- Nanodrop test
Drylab
- Improving the merged model
- Making an ODE model of the decoy sites
- Working on the pharmacokynetics model
Human Practices
- Working on the fact checker web platform
- Preparing the instructions and example files for collaborating teams
General Activities
- Regular team meetings
- Looking for sponsors
- Working on outreach ideas
- Sharing our project with colleagues and faculty members
Wetlab
- Digestion
- Construct digestion
- Vector digestion
- PCR purification for the constructs
- PCR puricfication for the vectors
- Nanodrop results
- Continuing with the purification
- Vector purification
- Construct purification
- Ligation
- Preparing agar plates
- Transformation
- Plating
- Colony picking and PCR
- Culturing the ligation products
Drylab
- Sensitivity analysis of the merged model
- Estimating promoter rates
- Working on the pharmacokynetics model
Human Practices
- Working on the fact checker web platform
General Activities
- Regular team meetings
- Looking for sponsors
- Working on outreach ideas
Wetlab
- Colony picking and PCR
- Small cultures and preparation for protein expression
- Miniprepping new constructs
- Sequencing
- Trnasformation and plating
- Expressing samples
- Protein purification
- Determining protein concentration
- SDS analysis
- Performing the protein expression in an anaerobic environment
- MRI experiments
Drylab
- Working on the pharmacokynetics model
Human Practices
- Fact checker platform is up and running
General Activities
- Regular team meetings
- Looking for sponsors
- Contacting the media for outreach purposes
- Editing and sending our Brick of knowledge to the Copenhagen iGEM team for our collaboration with them.
Wetlab
- Expression cultures
- Anaerobic expression
- Protein expression
- Making the BioBricks
- SDS analysis
- BugBuster protocol
- SDS PAGE gel
Drylab
- Working on the pharmacokynetics model
Human Practices
- Editing the newly arrived revised "facts"
September
General Activities
- Regular team meetings
- Looking for sponsors
- Contacting the media for outreach purposes
- Designing our team t-shirts
Wetlab
- Digesting samples
- Gel extraction purification
- PCR purification
- Nanodrop test
- Ligation
- Transformation
- Plating
- Colony picking and PCR
- Gel analysis
Drylab
- Working on the pharmacokynetics model last details
Human Practices
- Editing the newly arrived revised "facts"
- Designing promotional goodies for the Synthetic Facts website
General Activities
- Regular team meetings
- Looking for sponsors
- Contacting the media for outreach purposes
Wetlab
- Preparation for protein expression
- Preparation of LB medium
- Protein expression
- Making more BioBricks
- Preparation for CEST measurements
- Miniprepping
- PCR and PCR purification
- Gel extraction
- Re-digesting 1G70
- Ligation
Drylab
- Working on the update of the models on the wiki
Human Practices
- Editing the newly arrived revised "facts"
- Getting promotional goodies for the Synthetic Facts website
General Activities
- Regular team meetings
- Looking for sponsors
- Contacting the media for outreach purposes
- Designing the poster and the presentation
Wetlab
- Transformation and plating
- Colony picking and PCR
- Small cultures
- Miniprepping
- Preparing the BioBricks for shipment to Boston
- Making of samples for sequencing
Drylab
- Working on the update of the models on the wiki
Human Practices
- Editing the newly arrived revised "facts"
General Activities
- Regular team meetings
- Looking for sponsors
- Contacting the media for outreach purposes
- Designing the poster and the presentation
Wetlab
- Preparing the BioBricks for shipment once more due to an external issue with the shipment of the BioBricks
- Culturing bacteria
- Prepare bacteria for electroporation and perform electroporation
- Creating small samples
- Preparing LB medium
Drylab
- Working on the update of the models on the wiki
Human Practices
- Editing the newly arrived revised "facts"
October
General Activities
- Regular team meetings
- Contacting the media for outreach purposes
- Adding the final touches to the poster and the presentation
- Adding final details to the wiki
- Adding last details on the judging form
Wetlab
- Protein purification
- SDS analysis
- Fluorescence analysis
- Filling in the characterization forms from our BioBricks on the registry
Drylab
- Double checking modeling content on the wiki
Human Practices
- Editing the newly arrived revised "facts"
- Making sure all the goodies for the Jamboree are good to go
General Activities
- Get ready for the European Jamboree!
- Have fun at the European Jamboree.
General Activities
- Regular team meetings
- Looking for more sponsors
- Contacting the media for outreach purposes
- Improving the poster, presentation and wiki
Wetlab
- Doing a few more experiments.
Human Practices
- Analyzing and adding to the wiki the results from the poll we did during the European Jamboree.
General Activities
- Regular team meetings
- Making the best out of our last chance to get more sponsors
- Adding final touches to the poster, presentation and wiki
Wetlab
- Finalizing the last experiments before the wiki freeze.
