Team:KU Leuven/Notebook/Newsfeed
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Newsfeed
Week 6: the 3th-7th of August
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-We received material kindly given by KOLO Instruments -Paulussen Freddy
-Searching hotels in Bordeaux during the symposium.
-Folders and brochures are ordered.
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-Write protocol for AHL detection
-Write abstract
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-Perform gel electrophoresis to confirm double knock-outs: 2 colonies of ΔTar ΔCheZ and 4 colonies of ΔTar ΔTsr still had ΔTar. This means we have our double mutants! We still need to check ΔTar ΔCheZ to be sure the rest of the operon is ok.
-We performed a motility test to verify the phenotypical change of knocking out CheZ
-Assembly of gBlocks by using the Gibson Assembly Method
-We decided to participate at the iGEM 2015 Measurement Interlab Study. Therefore we transformed E. cloni with the biobricks J23101, I12504, J23106 and J23117.
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-Write report about Simbiology
-Extending Hybrid Model to 2D
- Update Facebook & Twitter
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-Contact potential keynote speakers for the symposium
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-The History-page is online!
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-Making images for wiki icons for subsections of the Newsfeed
-Making tattoo-images to use as gadget
Week 5 (27-31/07/2015)
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-Plane tickets to Boston are booked
-Hotels Boston are booked
-We have two new sponsors: Eppendorf & LRD!
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-Make protocol for plasmid assembly
-Make protocol for leucine detection
-Make protocol for AHL detection
-Design & order primers for the Gibson Assembly Method
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-Making double knock-out strains by P1 transduction
-Performing PCR and gel electrophoresis to confirm that we have double knock-outs
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-The 2D models on 100 by 100 grid are working
- Update Facebook & Twitter
-Mail library for putting the display online
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-Contacting possible key speakers
-Making a survey about public perception of synthetic biology
-Mail Bordeaux for meet up francophone
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-Modeling page online
-Adjust the description of the project
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-Making images for wiki team presentation
-Making images for wiki icons for subsections of the Newsfeed
-Making animation that represents our pattern forming bacteria
Week 4 (20-24/07/2015)
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-Meeting Toulouse team at 07/21/15 in Brussels
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-Search parameters necessary in mathematical model
-Design and order the designed plasmid gBlocks
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-Performing a PCR and gel electrophoresis to confirm that the kanamycin cassette has successfully been removed from ΔTar and make a stock of this new strain.
-Preparations for phage P1 lysate for making the double knock-out strains
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-Simulating cell A and cell B in SymBiology
-Looking for usable constants
-Adapting the 2D continuous model
- Update Facebook & Twitter
-Making understandable mail about our project for family and friends in English and Dutch
-Mail for collaboration with Indian team
-Send reminders to contact responsible people for adding a text of our iGEM project to the websites of our faculties
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-Looking for possible key speakers
-Design flyer
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-Team page is added
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-Making images for wiki team presentation
-Making images of animals with new patterns for the wiki
Week 3 (13-17/07/2015)
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-Construct plasmid
-Design & order primers for controlling the knock-out processes
-Research to an alternative knock-out technique for double knockouts
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-Calculation of transformation efficiency of competent cells (E. cloni)
-Order 3 knock-out strains (ΔTar, ΔTsr and ΔCheZ) & prepare a stock
-Order Chromobacterium violaceum CV026 transposon mutant for use in AHL detection & prepare a stock
-Removing the kanamycin resistance gene of the ΔTar by transforming a plasmid with recombinase gene
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-Making and adapting the 1D hybrid and continuous model to the conditions of the wet lab
-Making a simple 2D continuous model
-Thinking about true parameters
-Making a 1D model with pdepe in Matlab
-Explore symbiology
-Making a 2D model with PDE toolbox in Matlab (not ready yet)
- Update Facebook & Twitter
- Contact responsible people for adding a text of our iGEM project to the websites of our faculties
- Contacting Toulouse team 2015 for meeting them at 07/21/15
- Interview with Jo De Wachter of the Science department
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-Preparing e-mail for symposium and contact possible key speaker
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-The description of our project is online
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-Make images for wiki
Week 2 (06-10/07/2015)
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-Discussion with modeling team: which parameters do they need?
-Search experiments for quantification of specific proteins, small molecules and amino acids
-Decide on promoters of the plasmid
-Construct the plasmids
-Make a working scheme (strategy)
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-Prepare LB agar medium
-Prepare competent cells (E. cloni) and test competency
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-Literature research into hybrid models
-Further work on single cell agent-based model
-Implemented simple one-dimensional hybrid model
-Explore PDE Toolbox
-Work on an implicit continuous model
-Try if it’s possible to simulate pattern formation of bacteria in COMSOL
-Update Facebook & Twitter: picture and text of every individual team member
-Contact responsible people for adding a text of our iGEM project to the websites of our faculties
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-Thinking of school projects for primary school and secondary school
-Thinking of symposium
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-Helping with images and layout of wiki
-Helping with images and brochure for sponsors
Week 1 (01-03/07/2015)
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-Lab safety training
-Discussing tasks and practical arrangements (tickets Boston)
-Taking photos to use in the brochure, on the wiki and for social media
-Take a tour through our high tech bio laboratory
-Meeting with potential sponsor
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-Searching for strains and biobricks for our circuit
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-Set up GitHub
-Constructed simple single cell agent-based model
-Worked on an explicit discretization of a continuous model
-Link Facebook with Twitter
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-’Coming soon’ page is online
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-Helping with images and layout of wiki
-Helping with images and brochure for sponsors
