Difference between revisions of "Team:KU Leuven/Notebook/Newsfeed"

 
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<div id="showclass">
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  <div class="showall"><p>Show all</p></div>
+
  <div class="showall"><img src="https://static.igem.org/mediawiki/2015/a/a2/KU_Leuven_Wiki_Button_-_Show_all2.png" width="100%"></div>
 
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  <div class="img" id="social">
 
  <div class="img" id="social">
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<div id="showclassm">
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  <div class="showall"><p>Show all</p></div>
+
  <div class="showall"><img src="https://static.igem.org/mediawiki/2015/f/f1/KU_Leuven_Wiki_Button_-_Show_all2_square.png" width="100%"></div>
 
  <div class="img" id="socialm">
 
  <div class="img" id="socialm">
 
   <img src="https://static.igem.org/mediawiki/2015/4/45/KU_Leuven_Wiki_Button_-_Communication.png" width="100%">
 
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<div class="summarytext">
 
<div class="summarytext">
 
  <div id="table">
 
  <div id="table">
 +
 +
<div class="time">
 +
    <div class="circle"></div> <h2>Week 12: the 14<sup>th</sup>-18<sup>th</sup> of September</h2>
 +
  </div>
 +
 +
  <div class="partwrapper">
 +
<div class="part">
 +
  <div  class="general">
 +
    <div class="partimg">
 +
    <img src="https://static.igem.org/mediawiki/2015/e/ed/KUL_Wiki_Button_-_General.png" alt="team" width="100%">
 +
    <div class="hidegeneral"><p>hide</p></div>
 +
    </div>
 +
    <div class="partnews">
 +
<p>-Writing and constructing wiki pages. </br>
 +
-Our sweaters and T-shirts arrived!</p>
 +
    </div>
 +
  </div>
 +
  </div>
 +
 +
<div class="part">
 +
  <div  class="lab">
 +
    <div class="partimg">
 +
    <img src="https://static.igem.org/mediawiki/2015/c/ca/KU_Leuven_Wiki_Button_-_Wetlab.png" alt="team" width="100%">
 +
    <div class="hidelab"><p>hide</p></div>
 +
    </div>
 +
    <div class="partnews">
 +
<p>-Cloning our biobricks by use of the plasmid backbone originating from the InterLab Measurement Study. As a result,the biobricks CheZ-GFP, LuxI-His, LuxR-E and Ag43-YFP were obtained!<br/>
 +
-Assembling the biobrick CheZ-GFP behind a strong promoter and RBS in order to characterize this biobrick. <br/>
 +
-Assembling a strong promoter with GFP in order to compare the fluorescence to our library of promoters generated during the InterLab Measurement Study. Unfortunately the strong promoter was not green which indicates that the ligation did not work.<br/>
 +
-Performing the OHHL quantification method and the leucine quantification method.</p>
 +
    </div>
 +
  </div>
 +
  </div>
 +
 +
  <div class="part">
 +
  <div class="model">
 +
    <div class="partimg">
 +
    <img src="https://static.igem.org/mediawiki/2015/d/db/KU_Leuven_Wiki_Button_-_Modelling.png" alt="team" width="100%">
 +
    <div class="hidemodel"><p>hide</p></div>
 +
    </div>
 +
    <div class="partnews">
 +
<p>-Making new continuous model simulation videos simulating each part of the model separately.</p>
 +
    </div>
 +
  </div>
 +
  </div>
 +
 +
  <div class="part">
 +
    <div class="social">
 +
    <div class="partimg">
 +
    <img src="https://static.igem.org/mediawiki/2015/4/45/KU_Leuven_Wiki_Button_-_Communication.png" alt="team" width="100%">
 +
    <div class="hidesocial"><p>hide</p></div>
 +
    </div>
 +
    <div class="partnews">
 +
<p>-Contacting media to share our results<br/>
 +
-Updating Facebook and Twitter</p>
 +
    </div>
 +
  </div>
 +
  </div>
 +
 +
  <div class="part">
 +
  <div  class="evo">
 +
    <div class="partimg">
 +
    <img src="https://static.igem.org/mediawiki/2015/8/8c/KU_Leuven_Wiki_Button_-_Education.png" alt="team" width="100%">
 +
    <div class="hideevo"><p>hide</p></div>
 +
    </div>
 +
    <div class="partnews">
 +
<p>-Working further on our educational card game about synthetic biology.</p>
 +
    </div>
 +
  </div>
 +
  </div>
 +
 +
  <div class="part">
 +
  <div class="wiki">
 +
    <div class="partimg">
 +
    <img src="https://static.igem.org/mediawiki/2015/c/c3/KU_Leuven_Wiki_Button_-_Wiki.png" alt="team" width="100%">
 +
    <div class="hidewiki"><p>hide</p></div>
 +
    </div>
 +
    <div class="partnews">
 +
<p>-Our wiki game is online! </p>
 +
    </div>
 +
  </div>
 +
  </div>
 +
 +
  <div class="part">
 +
  <div  class="art">
 +
    <div class="partimg">
 +
    <img src="https://static.igem.org/mediawiki/2015/f/f2/KU_Leuven_Wiki_Button_-_Graphics.png" alt="team" width="100%">
 +
    <div class="hideart"><p>hide</p></div>
 +
    </div>
 +
    <div class="partnews">
 +
<p>-Graphical design of our wiki </br>
 +
-Design of our poster</p>
 +
    </div>
 +
  </div>
 +
  </div>
 +
</div>
  
 
<div class="time">
 
<div class="time">
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-On Monday, we had our symposium ‘iGEM Symposium Day on Synthetic Biology, Cell Systems and Ethics in Biochemistry’.
+
<p>- On Monday, we had our ‘iGEM Symposium Day on Synthetic Biology, Cell Systems and Ethics in Biochemistry’
 
</p>
 
</p>
 
     </div>
 
     </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-We wanted to construct the biobricks LuxI-His, RBS-LuxI-His, CheZ-GFP, RBS-CheZ-GFP, RBS-CheZ-GFP-RBS-PenI-Term-PpenI-RBS-RFP-Term by high fidelity tail-PCR and ligation in pSB1C3. We transformed these biobricks in E. cloni and tested these colonies by PCR.The biobrick RBS-CheZ-GFP-RBS-PenI-Term-PpenI-RBS-RFP-Term was confirmed by PCR and prepared for sequencing. The high fidelity PCR and cloning of other potential biobricks was repeated. <br/>
+
<p>- Constructing the BioBricks LuxI-His, RBS-LuxI-His and CheZ-GFP, RBS-CheZ-GFP by high fidelity tail-PCR, digestion and ligation in pSB1C3<br/>
−
-This week, we made our strains ΔtarΔtsr and ΔtarΔcheZ electrocompetent.<br/>
+
- Transforming these BioBricks in <i>E. cloni</i>, testing colonies by PCR and preparing for sequencing. The high fidelity PCR and cloning of other potential BioBricks was repeated. <br/>
−
-Further, we would like to characterise a biobrick. Therefore, we pasted RBS-CheZ-GFP after the promoter J23101. The idea is to test this biobrick in a cheZ knock-out strain. We would also want to prove the presence of GFP. <br/>
+
- Making our strains Δ<i>tar</i>Δ<i>tsr</i> and Δ<i>tar</i>Δ<i>cheZ</i> electrocompetent<br/>
−
-Our colonies containing the assembled gBlocks were checked by restriction mapping. The presence of the pUC in our samples made the restriction mapping complicated. This is why we chose to also investigate different samples who were treated with DpnI after the Gibson Assembly. The DpnI cuts methylated DNA through which the original pUC should disappear in our sample. Unfortunately, the restriction mapping did not give the expected result. <br/>
+
- Checking our colonies containing the assembled gBlocks by restriction mapping showed the presence of the original pUC19 vector in our samples. Treating the assembled gBlocks with DpnI should circumvent this since DpnI only cuts the methylated DNA. <br/>
−
-To have a backup plan, we also repeated the Gibson Assembly with pUC and the enzyme DpnI. After cloning and restriction mapping, we concluded that our sample contains only pUC. <br/>
+
- Digesting with DpnI eliminated the original pUC19 and not a single colony grew on the control plate transformed with plasmid only. Analysing the positive colonies showed presence of pUC19. </p>
−
-Our fourth gBlock is more or less 600 bp. To increase the amount and concentration of this gBlock, we performed a phusion high fidelity PCR. </p>
+
 
     </div>
 
     </div>
 
   </div>
 
   </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Hybrid model: implemented periodic boundary conditions <br/>
+
<p>- Hybrid model: implementing periodic boundary conditions <br/>
−
-Hybrid model: first draft of internal model incorporation into hybrid model <br/>
+
- Hybrid model: incorporating the first draft of the internal model into hybrid model <br/>
−
-Attended MATLAB webinar: Optimizing and Accelerating your MATLAB Code
+
- Attendeding MATLAB webinar: Optimizing and Accelerating your MATLAB Code
 
</p>
 
</p>
 
     </div>
 
     </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Update Facebook & Twitter<br/>
+
<p>- Updating Facebook & Twitter<br/>
−
-Adapting text of interview of Jo De Wachter
+
- Adapting text of interview with Jo De Wachter</p>
−
</p>
+
 
     </div>
 
     </div>
 
   </div>
 
   </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Preparing games and presentations for school visits<br/>
+
<p>- Preparing games and presentations for school visits<br/>
−
-Visit the schools to teach children about synthetic biology<br/>
+
- Visiting schools to teach children about DNA and synthetic biology<br/>
−
-Analyzing the results of our survey
+
- Analyzing the results of our survey</p>
−
</p>
+
 
     </div>
 
     </div>
 
   </div>
 
   </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Writing texts for on Wiki<br/>
+
<p>- Writing texts for the Wiki<br/>
−
-Our secret page is online! <br/>
+
- Putting our 'Secret'-page online! <br/>
 
</p>
 
</p>
 
     </div>
 
     </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Working on the design of the hoodies
+
<p>- Working on the design of the sweaters
 
</p>
 
</p>
 
     </div>
 
     </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-We have new sponsors: Gips Mineral, Genzyme and VWR ! <br/>
+
<p>- We have new sponsors: Gips Mineral, Genzyme and VWR! <br/>
−
-We kindly received gadgets of our sponsors for use in our goody bag.<br/>
+
- We kindly received gadgets from our sponsors to distribute in our goody bags for the Symposium<br/>
−
-Our bacteria-stickers are ordered </p>
+
- Ordering our self-designed bacteria stickers </p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-We obtained assembled gBlocks 1-2-3 and 5-6 in mini prepped form. On gel, we discovered that we have assembled gBlocks in pUC, but we also have a band at the height of pUC. So we cutted out the correct band, did a gel purification and transformed again. <br/>
+
<p>- Miniprepping and analyzing the assembled gBlocks is showing the assembled plasmid, but also the presence of pUC19 used as template. Transformation of the gel-purified correct plasmid was done in <i>E. Cloni</i><br/>
−
-In parallel, we further tried to assemble gBlocks 1+2+3 with gBlock 4 by using two colonies who did not contain pUC. Later, we noticed by PCR that the assembly was not correct. <br/>
+
- In parallel, assembling LuxI with gBlocks 1+2+3 and gBlocks 5+6 with gBlocks 1+2+3 was conducted with colonies that did not contain any pUC. Analysis of the gel was not showing any sign of digestion. </p>
−
-We also tried to assemble gBlocks 1+2+3 with 5+6, this would give us the total plasmid for cell B. On gel, we saw that the restriction did not work. Probably, there was a problem with the restriction enzyme. </p>
+
 
     </div>
 
     </div>
 
   </div>
 
   </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Collaboration with Toulouse: diffusion in Comsol <br/>
+
<p>- Collaboration with Toulouse: diffusion in Comsol <br/>
−
-Implementation of cells algorithm for nearest neighbor search <br/>
+
- Implementation of cells algorithm for nearest neighbor search <br/>
−
-Code optimization <br/>
+
- Optimization of the code <br/>
−
-Meeting with Dirk Roose <br/>
+
- Meeting with Dirk Roose <br/>
−
-Examine effects of different contributions to cell movement in hybrid mode</p>
+
- Examining effects of different contributions to cell movement in hybrid mode</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Making promotion for the symposium <br/>
+
<p>- Promoting the symposium <br/>
−
-Update Facebook and Twitter
+
- Updating Facebook and Twitter
−
-Press release for symposium</p>
+
- Press release for symposium</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Making presentation, scenario for our symposium. <br/>
+
<p>- Making a presentation and writing the scenario for our symposium <br/>
−
-Practical arrangements for our symposium.<br/>
+
- Arranging our symposium<br/>
−
-Working on an educational game about synthetic biology
+
- Working on an educational game about synthetic biology
 
</p>
 
</p>
 
     </div>
 
     </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Adapting the team page: our mentors and advisors are online! <br/>
+
<p>- Adapting the team page: our mentors and advisors are online! <br/>
−
-Adapting our website for mobiles. <br/>
+
- Adapting our website for mobiles <br/>
−
-Making a game for our secret pag.
+
- Making a game for our secret page</p>
−
</p>
+
 
     </div>
 
     </div>
 
   </div>
 
   </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Designing our iGEM banner <br/>
+
<p>- Designing our iGEM banner <br/>
−
-Designing the print of our hoodies <br/>
+
- Designing our sweaters <br/>
−
-Adapting buttons of the wiki <br/>
+
- Adapting buttons of the wiki <br/>
−
-Designing the bacteria version of our promoter and supervisor <br/>
+
- Designing the bacterium stickers of our promoter and supervisor <br/>
−
-Graphical design for the secret page
+
- Designing funny pictures for the secret page
 
</p>
 
</p>
 
     </div>
 
     </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-We are in the track ‘New applications’<br/>
+
<p>- We are in the track ‘New applications’<br/>
−
-Received offers for hoodies, stickers and tattoos <br/>
+
- Receiving offers for sweaters, stickers and tattoos <br/>
−
-Collaboration: Skype session with TU Delft <br/>
+
- Collaboration: Skype session with TU Delft <br/>
−
-Collaboration: Measure pH of tap water and river water & sending samples to the iGEM team of York <br/>
+
- Collaboration: Measuring pH of tap water and river water & sending samples to the iGEM team of York <br/>
−
-Collaboration: Interviewed people on the street for chewing-gum survey of the iGEM team of Aix-Marseille Université <br/>
+
- Collaboration: Interviewing people on the street for chewing-gum survey of the iGEM team of Aix-Marseille Université <br/>
−
-We translated our survey in French for further distribution in Wallonie.
+
- Translating our survey in French for further distribution in Wallonie.
 
</p>
 
</p>
 
     </div>
 
     </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-We searched more information about lab safety. <br/>
+
<p>- Searching more information about lab safety <br/>
−
-We utilized literature to prepare our experiment of the InterLab Measurement Study.</p>
+
- Analyzing the results of the InterLab Measurement Study</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-This week we made electrocompetent cells. Their transformation efficiency is higher than that of chemocompetent cells, so they could be useful in making biobricks and transforming our assembled gBlocks.<br/>
+
<p>- Preparing electrocompetent cells<br/>
−
-We repeated the tail PCR of luxR. This time we performed a touchdown PCR in order to become more specific results. <br/>
+
- Optimizing the tail PCR to make Biobricks <br/>
−
-Our three biobricks were purified by using a gel extraction kit. After this, we inserted our biobricks in pSB1C3. The next step is screening colonies by PCR to find plasmids with the right insert.<br/>
+
- Cloning the PCR products into pSB1C3, transforming the plasmids and screening of colonies to find the correct insert <br/>
−
-We made our devices for the InterLab Measurement Study by using the Biobrick Assembly Method. After this we transformed electrocompetent <i>E. cloni</i> with our devices. First we grew our cells under the recommended conditions of iGEM on plates and afterwards we made a liquid culture. On Friday, we made our standard curve based on fluorescein and we measured our devices.
+
- Transforming the devices for the Interlab Measurement Study <br/>
−
<br/>
+
- Preparation of the standard curve based on fluorescein and measuring the fluorescence of the new devices <br/>
−
-We used the NEBuilder® HiFi DNA Assembly Master Mix to assemble our gBlocks. After doing a PCR, we visualised our results on a gel. We obtained a positive result for gBlocks 5 and 6. So we transformed these assembled gBlocks in electrocompetent <i>E. cloni</i>. We checked our  transformed gBlocks on PCR, but a confirmation by restriction mapping is still needed.
+
- Assembling the gBlocks using NEBuilder® HiFi DNA Assembly Master Mix and transforming the checked pcr products in electrocompetent <i>E. cloni</i> </p>
−
</p>
+
 
     </div>
 
     </div>
 
   </div>
 
   </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Meeting with Tim Odenthal <br/>
+
<p>- Meeting with Tim Odenthal <br/>
−
-Optimization of hybrid model code <br/>
+
- Optimization of hybrid model code <br/>
−
-Implementation of cell-cell interactions, including repulsion as well as attraction
+
- Implementation of cell-cell interactions, including repulsion as well as attraction</p>
−
</p>
+
 
     </div>
 
     </div>
 
   </div>
 
   </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Update Facebook & Twitter <br/>
+
<p>- Updating Facebook & Twitter <br/>
−
-Spreading the survey on social media & inform people about the symposium <br/>
+
- Spreading the survey on social media & informing people about the symposium <br/>
−
-Appointment with Ilse Frederickx for KU Leuven press </p>
+
- Appointment with Ilse Frederickx for KU Leuven press </p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Contacting speakers for symposium<br/>
+
<p>- Contacting keynote speakers for the Symposium<br/>
−
-Organizing symposium <br/>
+
- Organizing symposium <br/>
−
-Mailing schools to give a playful course about synthetic biology <br/>
+
- Mailing schools to give a playful course about synthetic biology <br/>
−
-We decided on rules for a nice card game about synthetic biology </p>
+
- Deciding on the rules for a nice card game about synthetic biology </p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Adapting pages <br/>
+
<p>- Adapting pages <br/>
−
-Putting ‘Symposium’ page online</p>
+
- Putting ‘Symposium’-page online</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Making informative images for the Research-page <br/>
+
<p>- Making informative images for the Research-page <br/>
−
-Making buttons for the wiki <br/>
+
- Making buttons for the wiki <br/>
−
-Design bacteria-stickers for use in schools and as gadget <br/>
+
- Designing bacteria-stickers for use in schools and as gadgets <br/>
−
-Continue with the design of our hoodies <br/>
+
- Continuing with the design of our sweaters <br/>
−
-Making funny images for our secret page on our wiki </p>
+
- Designing funny images for our secret page on the wiki </p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Our flyers and sponsor brochures arrived!<br/>
+
<p>- Our flyers and sponsor brochures arrived!<br/>
−
-Survey about synthetic biology with people in the street <br/>
+
- Conducting a survey about synthetic biology interviewing people on the street <br/>
−
-Working on a team song
+
- Working on a team song
 
</p>
 
</p>
 
     </div>
 
     </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Making a protocol for leucine detection <br/>
+
<p>- Making a protocol for leucine detection <br/>
−
-Research about lab safety</p>
+
- Researching lab safety</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-The transformation of chemocompetent cells for the Interlab Measurement Study was not efficient, therefore we repeat this with electrocompetent cells. We grew the transformed cells overnight and performed a miniprep.<br/>
+
<p>- Switching from transformation of chemocompetent cells to electroporation due to low efficiency for the Interlab Measurement Study <br/>
−
-To check if the operon of  ΔTarΔCheZ is OK, we used a PCR to confirm that all the genes are present.<br/>
+
- Checking the intactness of other genes in the tar-tap-cheRBYZ operon by PCR <br/>
−
-After performing a PCR, there were no bands visible of the assembled gBlocks, probably we didn’t use enough Gibson Assembly Master Mix <br/>
+
- Ordering NEBuilder to repeat the failed Gibson Assembly <br/>
−
-We started making three BioBricks starting from our gBlocks. We performed a high fidelity tail PCR to include the prefix and suffix in our biobrick. The parts were digested and purified on a gel. <br/>
+
- Making three BioBricks starting from our gBlocks by tail PCR and restriction digestion <br/>
−
-We ordered materials for leucine and AHL detection </p>
+
- Ordering materials for leucine and AHL detection </p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 523: Line 612:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Finish implementing hybrid model I in 2D, including ADI scheme for PDE part <br/>
+
<p>- Finishing implementation of the hybrid model I in 2D, including ADI scheme for PDE part <br/>
−
-Extend hybrid model II to 2D <br/>
+
- Extending hybrid model II to 2D <br/>
−
-Run hybrid model simulations <br/>
+
- Running hybrid model simulations <br/>
−
-Finishing report Simbiology <br/>
+
- Finishing report Simbiology <br/>
−
-Contacting Toulouse team for collaboration <br/>
+
- Contacting Toulouse team for collaboration <br/>
−
-Contacting professors for possible collaboration</p>
+
- Contacting professors for possible collaboration</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 540: Line 629:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Update Facebook & Twitter </p>
+
<p>- Updating Facebook & Twitter </p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 552: Line 641:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Thinking of educational games <br/>
+
<p>- Brainstorming about educational games </p>
−
-Outreach: Put popular message about our project on Facebook and Twitter </p>
+
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 565: Line 653:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Our ‘Newsfeed’ & ‘Research’-page are online! <br/>
+
<p>- Putting our ‘Newsfeed’ & ‘Research’-page online! <br/>
−
-Implemented Lightbox and EasySwitch button</p>
+
- Implementing an EasySwitch button and a Lightbox</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 578: Line 666:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Making informative images for the ‘Research’-page <br/>
+
<p>- Making informative images for the ‘Research’-page <br/>
−
-Start with the design of hoodies <br/>
+
- Starting the design of sweaters <br/>
−
-Making funny images for our secret page </p>
+
- Photoshopping funny images for our secret page </p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 598: Line 686:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-We received lab material kindly given by KOLO Instruments - Paulussen Freddy <br/>
+
<p>- We received lab material kindly provided by KOLO Instruments - Paulussen Freddy <br/>
−
-Searching hotels in Bordeaux for the iGEM Meetup France 2015 <br/>
+
- Searching hotels in Bordeaux for the iGEM Meetup France 2015 <br/>
−
-Folders and brochures are ordered
+
- Ordering folders and brochures</p>
−
</p>
+
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 613: Line 700:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Writing protocol for AHL detection <br/>
+
<p>- Writing protocols for AHL detection <br/>
−
-Writing abstract about literature on Wiki</p>
+
- Writing abstract about literature on Wiki</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 626: Line 713:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-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 still intact. <br/>
+
<p>- Confirming the double knock-outs and checking the intactness <br/>
−
-We performed a motility test to verify the phenotypical change of knocking out CheZ <br/>
+
- Performing a motility test to verify the phenotypical change of knocking out <i>cheZ</i> <br/>
−
-Assembly of gBlocks by using the Gibson Assembly Method <br/>
+
- Assembling the gBlocks using the Gibson Assembly Method <br/>
−
-We decided to participate at the iGEM 2015 Measurement Interlab Study. Therefore we transformed <i>E. cloni</i> with the biobricks J23101, I12504, J23106 and J23117.</p>
+
- Transforming <i>E. cloni</i> with the BioBricks J23101, I12504, J23106 and J23117 to participate in the iGEM 2015 Measurement Interlab Study.</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 641: Line 728:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Write report about Simbiology <br/>
+
<p>- Writing a report about Simbiology <br/>
−
-Extending Hybrid Model to 2D </p>
+
- Extending the Hybrid Model to 2D </p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 654: Line 741:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Update Facebook & Twitter </p>
+
<p>- Updating Facebook & Twitter </p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 666: Line 753:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Contact potential keynote speakers for the symposium  </p>
+
<p>- Contacting potential keynote speakers for the symposium  </p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 678: Line 765:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-The History-page is online!</p>
+
<p>- Putting the History-page online</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 690: Line 777:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Making images for wiki-icons for subsections of the Newsfeed <br/>
+
<p>- Making images for wiki-icons for subsections of the Newsfeed <br/>
−
-Making tattoo-images to use as gadget </p>
+
- Making tattoo-images to use as gadgets </p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 709: Line 796:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Plane tickets to Boston are booked <br/>
+
<p>- Booking plane tickets to Boston<br/>
−
-Hotels Boston are booked <br/>
+
- Booking hotels Boston <br/>
−
-We have two new sponsors: Eppendorf & LRD!</p>
+
- Two new companies are sponsoring: Eppendorf & LRD!</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 723: Line 810:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Make protocol for plasmid assembly <br/>
+
<p>- Preparing the protocol for plasmid assembly <br/>
−
-Make protocol for leucine detection <br/>
+
- Making the protocol for leucine detection <br/>
−
-Make protocol for AHL detection <br/>
+
- Making protocol for AHL detection <br/>
−
-Design & order primers for the Gibson Assembly Method</p>
+
- Designing & ordering primers for the Gibson Assembly Method</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 738: Line 825:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Making double knock-out strains by P1 transduction <br/>
+
<p>- Making double knock-out strains by P1 transduction <br/>
−
-Performing PCR and gel electrophoresis to confirm that we have double knock-outs</p>
+
- Performing PCR and gel electrophoresis to confirm correct double knock-outs</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 751: Line 838:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-The 2D models on 100 by 100 grid are working </p>
+
<p>- Finishing the 2D models on a 100 by 100 grid </p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 763: Line 850:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Update Facebook & Twitter <br/>
+
<p>- Updating Facebook & Twitter <br/>
−
-Mail library for putting the display in the library</p>
+
- Mailing library for putting the iGEM display in the library</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 776: Line 863:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Contact potential keynote speakers for the symposium<br/>
+
<p>- Contacting potential keynote speakers for the symposium<br/>
−
-Making a survey about public perception of synthetic biology <br/>
+
- Making a survey about public perception of synthetic biology <br/>
−
-Mail Bordeaux for iGEM Meetup France 2015</p>
+
- Mailing the Bordeaux iGEM team for the France Meetup 2015</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 790: Line 877:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Modeling page online <br/>
+
<p>- Putting the Modeling page online <br/>
−
-Adjust the description of the project</p>
+
- Adjusting the description of the project</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 803: Line 890:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Making images for wiki team presentation <br/>
+
<p>- Designing images for wiki team presentation <br/>
−
-Making images for wiki icons for subsections of the Newsfeed <br/>
+
- Designing images for wiki icons for subsections of the Newsfeed <br/>
−
-Making animation that represents our pattern forming bacteria </p>
+
- Designing animations that represent our pattern forming bacteria </p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 823: Line 910:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Meeting Toulouse team at 07/21/15 in Brussels</p>
+
<p>- Meeting the Toulouse iGEM team on 07/21/2015 at ESI (Expo Science International) in Brussels</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 835: Line 922:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Search parameters necessary in mathematical model <br/>
+
<p>- Searching parameters necessary in mathematical model <br/>
−
-Design and order the designed plasmid gBlocks</p>
+
- Designing and ordering the designed plasmid in gBlocks</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 848: Line 935:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-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. <br/>
+
<p>- Checking the removal of the kanamycin cassette in the Δ<i>tar</i> strain and make a stock of our successful knockout <br/>
−
-Preparations for phage P1 lysate for making the double knock-out strains</p>
+
- Preparing phage P1 lysate to make the double knock-out strains</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 861: Line 948:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Simulating cell A and cell B in SymBiology<br/>
+
<p>- Simulating cell A and cell B in SymBiology<br/>
−
-Looking for usable constants<br/>
+
- Looking for usable constants<br/>
−
-Adapting the 2D continuous model </p>
+
- Adapting the 2D continuous model </p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 875: Line 962:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Update Facebook & Twitter <br/>
+
<p>- Updating Facebook & Twitter <br/>
−
-Making understandable mail about our project for family and friends in English and Dutch
+
- Making understandable mail about our project for family and friends in English and Dutch<br/>
−
<br/>
+
- Mailing for a possible collaboration with SVCE (Indian iGEM team) </p>
−
-Mail for collaboration with SVCE (Indian iGEM team) <br/>
+
−
-Send reminders to contact responsible people for adding a text of our iGEM project to the websites of our faculties</p>
+
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 891: Line 976:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Looking for potential keynote speakers for the symposium<br/>
+
<p>- Inviting potential keynote speakers for the symposium</p>
−
-Design flyer</p>
+
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 904: Line 988:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Team page is added</p>
+
<p>- Adding the Team page</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 916: Line 1,000:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Making images for wiki team presentation <br/>
+
<p>- Making images for wiki team presentation <br/>
−
-Making images of animals with new patterns for the wiki</p>
+
- Designing the flyer <br/>
 +
- Making images of animals with new patterns for the wiki</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 935: Line 1,020:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Construct plasmid <br/>
+
<p>- Constructing the plasmids <br/>
−
-Design & order primers for controlling the knock-out processes <br/>
+
- Designing & ordering primers for controlling the knock-out proces <br/>
−
-Research to an alternative knock-out technique for double knockouts</p>
+
- Researching an alternative knock-out technique for double knockouts</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 949: Line 1,034:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Calculation of transformation efficiency of competent cells (<i>E. cloni</i>) <br/>
+
<p>- Calculating the transformation efficiency of competent <i>E. cloni</i> cells <br/>
−
-Order 3 knock-out strains (ΔTar, ΔTsr and ΔCheZ) & prepare a stock <br/>
+
- Ordering 3 knock-out strains (Δ<i>tar</i>, Δ<i>tsr</i> and Δ<i>cheZ</i>) & preparing a stock <br/>
−
-Order <i>Chromobacterium violaceum</i> CV026 transposon mutant for use in AHL detection & prepare a stock <br/>
+
- Ordering <i>Chromobacterium violaceum</i> CV026 transposon mutant for usage in AHL detection & preparing a stock <br/>
−
-Removing the kanamycin resistance gene of the ΔTar by transforming a plasmid with recombinase gene</p>
+
- Removing the kanamycin resistance gene of the Δ<i>tar</i> strain by transforming a plasmid with recombinase gene</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 964: Line 1,049:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Making and adapting the 1D hybrid and continuous model to the conditions of the wet lab<br/>
+
<p>- Making and adapting the 1D hybrid and continuous model to the conditions of the wet lab<br/>
−
-Making a simple 2D continuous model<br/>
+
- Making a simple 2D continuous model<br/>
−
-Thinking about true parameters <br/>
+
- Implementing biologically relevant parameters <br/>
−
-Making a 1D model with pdepe in Matlab
+
- Making a 1D model with pdepe in Matlab <br/>
−
-Explore symbiology <br/>
+
- Exploring symbiology <br/>
−
-Making a 2D model with PDE toolbox in Matlab (not ready yet)</p>
+
- Making a 2D model with the PDE toolbox in Matlab (not ready yet)</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 981: Line 1,066:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Update Facebook & Twitter <br/>
+
<p>- Updating Facebook & Twitter <br/>
−
-Contact responsible people for adding a text of our iGEM project to the websites of our faculties<br/>
+
- Contacting responsible people for adding a text of our iGEM project to the websites of our faculties<br/>
−
-Contacting Toulouse team 2015 for meeting them at 07/21/15 <br/>
+
- Contacting the Toulouse 2015 iGEM team for a meetup at ESI (Expo Science International), Brussels on 07/21/2015 <br/>
−
-Interview with Jo De Wachter of the Science department</p>
+
- Interview with Jo De Wachter from the Science department</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 996: Line 1,081:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Preparing e-mail for symposium and contact possible key speaker</p>
+
<p>- Preparing e-mail for symposium and contacting possible keynote speakers</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 1,008: Line 1,093:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-The description of our project is online</p>
+
<p>- Putting the description of our project online</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 1,020: Line 1,105:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Make images for wiki</p>
+
<p>- Making images for the wiki</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 1,038: Line 1,123:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Discussion with modeling team: which parameters do they need?<br/>
+
<p>- Discussion with modeling team: which parameters do they need?<br/>
−
-Search experiments for quantification of specific proteins, small molecules and amino acids<br/>
+
- Searching experiments for quantification of specific proteins, small molecules and amino acids<br/>
−
-Decide on promoters of the plasmid<br/>
+
- Deciding on promoters of the plasmid<br/>
−
-Construct the plasmids<br/>
+
- Constructing the plasmids<br/>
−
-Make a working scheme (strategy)</p>
+
- Making a working scheme (strategy)</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 1,055: Line 1,140:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Prepare LB agar medium <br/>
+
<p>- Preparing LB agar medium <br/>
−
-Prepare competent cells (<i>E. cloni</i>) and test competency</p>
+
- Preparing competent cells (<i>E. cloni</i>) and testing their competency</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 1,068: Line 1,153:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Literature research into hybrid models<br/>
+
<p>- Researching literature about hybrid models<br/>
−
-Further work on single cell agent-based model<br/>
+
- Further working on single cell agent-based model<br/>
−
-Implemented simple one-dimensional hybrid model<br/>
+
- Implementing a simple one-dimensional hybrid model<br/>
−
-Explore PDE Toolbox<br/>
+
- Exploring PDE Toolbox<br/>
−
-Work on an implicit continuous model<br/>
+
- Working on an implicit continuous model<br/>
−
-Try if it’s possible to simulate pattern formation of bacteria in COMSOL</p>
+
- Trying to simulate pattern formation of bacteria in COMSOL</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 1,085: Line 1,170:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Update Facebook & Twitter: picture and text of every individual team member <br/>
+
<p>- Updating Facebook & Twitter with pictures and text of every individual team member <br/>
−
-Contact responsible people for adding a text of our iGEM project to the websites of our faculties
+
- Contacting responsible people for adding a text of our iGEM project to the websites of our faculties
 
</p>
 
</p>
 
     </div>
 
     </div>
Line 1,099: Line 1,184:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Thinking of school projects for primary school and secondary school <br/>
+
<p>- First meeting about school projects <br/>
−
-Thinking of symposium</p>
+
- Brainstorming about a symposium</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 1,112: Line 1,197:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Helping with images and layout of wiki <br/>
+
<p>- Designing images and layout of wiki <br/>
−
-Helping with images and brochure for sponsors</p>
+
- Designing images and brochure for sponsors</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 1,131: Line 1,216:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Lab safety training<br/>
+
<p>- Lab safety training<br/>
−
-Discussing tasks and practical arrangements (tickets Boston)<br/>
+
- Discussing tasks and practical arrangements (tickets Boston)<br/>
−
-Taking photos to use in the brochure, on the wiki and for social media <br/>
+
- Taking photos to use in the brochure, on the wiki and for social media <br/>
−
-Take a tour through our high tech bio laboratory <br/>
+
- Taking a tour through our high tech bio laboratory <br/>
−
-Meeting with potential sponsor</p>
+
- Meeting with potential sponsor</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Searching for strains and biobricks for our circuit</p>
+
<p>- Searching for strains and BioBricks for our circuit</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Set up GitHub <br/>
+
<p>- Setting up GitHub <br/>
−
-Constructed simple single cell agent-based model</br>
+
- Constructing a simple single cell agent-based model</br>
−
-Worked on an explicit discretization of a continuous model</p>
+
- Working on an explicit discretization of a continuous model</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Link Facebook with Twitter</p>
+
<p>- Linking Facebook and Twitter</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p> -’Coming soon’ page is online</p>
+
<p> - 'Coming soon' page is online</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
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     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p> -Helping with images and layout of wiki <br/>
+
<p> - Designing images and layout of wiki <br/>
−
-Helping with images and brochure for sponsors</p>
+
- Designing images and brochure for sponsors</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
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<div class="subsectionwrapper">
 
<div class="subsectionwrapper">
 
<div class="subimgrow">
 
<div class="subimgrow">
−
<div class="whitespaceside"></div>
+
<div class="whitespace1"></div>
 
<div class="subimg">
 
<div class="subimg">
 
<a href="https://2015.igem.org/Team:KU_Leuven/Notebook/History">
 
<a href="https://2015.igem.org/Team:KU_Leuven/Notebook/History">
 
  <img src="https://static.igem.org/mediawiki/2015/0/06/KU_Leuven_Wiki_Button_-_History2.png" width="100%">
 
  <img src="https://static.igem.org/mediawiki/2015/0/06/KU_Leuven_Wiki_Button_-_History2.png" width="100%">
 +
</a>
 +
</div>
 +
 +
<div class="whitespace">
 +
</div>
 +
 +
<div class="subimg">
 +
<a href="https://2015.igem.org/Team:KU_Leuven/Notebook/Achievements">
 +
<img src="https://static.igem.org/mediawiki/2015/b/b8/KU_Leuven_Wiki_Button_-_Achievements2.png" width="100%">
 
</a>
 
</a>
 
</div>
 
</div>
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</a>
 
</a>
 
</div>
 
</div>
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<div class="whitespaceside"></div>
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<div class="whitespace1"></div>
 
</div>
 
</div>
  
 
<div class="subtextrow">
 
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+
<div class="whitespace1"></div>
  
 
<div class="subtext">
 
<div class="subtext">
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  <h2>History</h2>
 
  <h2>History</h2>
 
  <p>Stroll down our memory lane !<br/></p>
 
  <p>Stroll down our memory lane !<br/></p>
 +
</a>
 +
</div>
 +
 +
<div class="whitespace">
 +
</div>
 +
 +
<div class="subtext">
 +
<a href="https://2015.igem.org/Team:KU_Leuven/Notebook/Achievements">
 +
<h2>Achievements</h2>
 +
<p>Check our achievements.<br/></p>
 
</a>
 
</a>
 
</div>
 
</div>
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</a>
 
</a>
 
</div>
 
</div>
−
<div class="whitespaceside"></div>
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<div class="whitespace1"></div>
 
</div>
 
</div>
  
 
<div class="subimgreadmore">
 
<div class="subimgreadmore">
−
<div class="whitespaceside"></div>
+
<div class="whitespace1"></div>
  
 
<div class="subimgrm">
 
<div class="subimgrm">
 
<a href="https://2015.igem.org/Team:KU_Leuven/Notebook/History">
 
<a href="https://2015.igem.org/Team:KU_Leuven/Notebook/History">
 +
<div id="more">
 +
<img src="https://static.igem.org/mediawiki/2015/7/73/KUL_Wiki_Button_-_Read_more.png" height="40%" width="85%" alt="Read more">
 +
</div>
 +
</a>
 +
</div>
 +
 +
<div class="whitespace">
 +
</div>
 +
 +
<div class="subimgrm">
 +
<a href="https://2015.igem.org/Team:KU_Leuven/Notebook/Achievements">
 
<div id="more">
 
<div id="more">
 
<img src="https://static.igem.org/mediawiki/2015/7/73/KUL_Wiki_Button_-_Read_more.png" height="40%" width="85%" alt="Read more">
 
<img src="https://static.igem.org/mediawiki/2015/7/73/KUL_Wiki_Button_-_Read_more.png" height="40%" width="85%" alt="Read more">
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<a href="https://2015.igem.org/Team:KU_Leuven/Notebook/History">
 
<a href="https://2015.igem.org/Team:KU_Leuven/Notebook/History">
 
<p>Stroll down our memory lane.</p>
 
<p>Stroll down our memory lane.</p>
 +
</a>
 +
</div>
 +
</div>
 +
 +
<div class="subimgrowm">
 +
<div class="whiterow">
 +
</div>
 +
</div>
 +
 +
<div class="subimgrowm">
 +
<div class="subimgm">
 +
<a href="https://2015.igem.org/Team:KU_Leuven/Notebook/Achievements">
 +
<b>History</b>
 +
<img src="https://static.igem.org/mediawiki/2015/b/b8/KU_Leuven_Wiki_Button_-_Achievements2.png" width="100%" >
 +
</a>
 +
</div>
 +
 +
<div class="whitespace">
 +
</div>
 +
 +
<div class="subtextm">
 +
<a href="https://2015.igem.org/Team:KU_Leuven/Notebook/Achievements">
 +
<p>Check our achievements.</p>
 
</a>
 
</a>
 
</div>
 
</div>
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   <div id="eppendorf">
 
   <div id="eppendorf">
 
       <a href="https://www.eppendorf.com/BE-en/"><img src="https://static.igem.org/mediawiki/2015/9/96/KU_Leuven_Logo_Eppendorf_transparant.png" alt="Eppendorf" width="95%"></a>
 
       <a href="https://www.eppendorf.com/BE-en/"><img src="https://static.igem.org/mediawiki/2015/9/96/KU_Leuven_Logo_Eppendorf_transparant.png" alt="Eppendorf" width="95%"></a>
 +
  </div>
 +
<div id="saillart">
 +
      <a href="http://www.glasatelier-saillart.be/English/english.html"><img src="https://static.igem.org/mediawiki/2015/c/ce/KU_Leuven_Sponsor_Saillard.png" alt="Glasatelier Saillart" width="95%"></a>
 
   </div>
 
   </div>
 
<div id="kuleuven">
 
<div id="kuleuven">
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       <a><img src="https://static.igem.org/mediawiki/2015/1/15/KUL_Ko-Lo_Instruments_logo_transparant.png" alt="Ko-Lo Instruments" width="95%"></a>
 
       <a><img src="https://static.igem.org/mediawiki/2015/1/15/KUL_Ko-Lo_Instruments_logo_transparant.png" alt="Ko-Lo Instruments" width="95%"></a>
 
     </div>
 
     </div>
−
<div id="regensys">
 
−
      <a href="http://regenesys.eu/"><img src="https://static.igem.org/mediawiki/2015/e/eb/KU_Leuven_Logo_Regenesys_Transparant.png" alt="Regenesys" width="95%"></a>
 
−
  </div>
 
 
</div>
 
</div>
  
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       <a href="https://www.bioke.com/"><img src="https://static.igem.org/mediawiki/2015/e/e1/KUL_Biok%C3%A9_logo_transparant.png" alt="Bioké" width="95%"></a>
 
       <a href="https://www.bioke.com/"><img src="https://static.igem.org/mediawiki/2015/e/e1/KUL_Biok%C3%A9_logo_transparant.png" alt="Bioké" width="95%"></a>
 
   </div>
 
   </div>
 +
<div class="logonormal">
 +
<div id="regensys">
 +
      <a href="http://regenesys.eu/"><img src="https://static.igem.org/mediawiki/2015/e/eb/KU_Leuven_Logo_Regenesys_Transparant.png" alt="Regenesys" width="95%"></a>
 +
  </div>
 +
<div class="whiterow"></div>
 
   <div id="thermofisher">
 
   <div id="thermofisher">
 
       <a href="https://www.fishersci.com/us/en/home.html"><img src="https://static.igem.org/mediawiki/2015/a/aa/KUL_Fischer_Scientific_logo_transparant.png" alt="Thermo Fisher Scientific" width="95%"></a>
 
       <a href="https://www.fishersci.com/us/en/home.html"><img src="https://static.igem.org/mediawiki/2015/a/aa/KUL_Fischer_Scientific_logo_transparant.png" alt="Thermo Fisher Scientific" width="95%"></a>
 
   </div>
 
   </div>
 +
</div>
 +
<div class="logonormal2">
 
<div id="vwr">
 
<div id="vwr">
 
       <a href="https://be.vwr.com/store/?&_requestid=866148&_DARGS=/store/cms/be.vwr.com/nl_BE/header_20159241139103.jsp.1_AF&_dynSessConf=4047468000326453053&targetURL=/store/%3F%26_requestid%3D866148&lastLanguage=en&/vwr/userprofiling/EditPersonalInfoFormHandler.updateLocale=&_D%3AcurrentLanguage=+&currentLanguage=en&_D%3AlastLanguage=+&_D%3A/vwr/userprofiling/EditPersonalInfoFormHandler.updateLocale=+"><img src="https://static.igem.org/mediawiki/2015/8/8d/KU_Leuven_Logo_VWR_transparant_.png" alt="VWR" width="95%"></a>
 
       <a href="https://be.vwr.com/store/?&_requestid=866148&_DARGS=/store/cms/be.vwr.com/nl_BE/header_20159241139103.jsp.1_AF&_dynSessConf=4047468000326453053&targetURL=/store/%3F%26_requestid%3D866148&lastLanguage=en&/vwr/userprofiling/EditPersonalInfoFormHandler.updateLocale=&_D%3AcurrentLanguage=+&currentLanguage=en&_D%3AlastLanguage=+&_D%3A/vwr/userprofiling/EditPersonalInfoFormHandler.updateLocale=+"><img src="https://static.igem.org/mediawiki/2015/8/8d/KU_Leuven_Logo_VWR_transparant_.png" alt="VWR" width="95%"></a>
 
   </div>
 
   </div>
 +
<div class = "whiterow"></div>
 +
<div id="lgc">
 +
<a href="http://www.lgcgroup.com/our-science/genomics-solutions/#.Vfx9V9yLTIU">
 +
                <img src="https://static.igem.org/mediawiki/2015/e/e6/KU_Leuven_LOGO_LGC.png" alt="LGC Genomics" width="80%">
 +
</a>
 +
</div>
 +
</div>
 
  <div id="footerimg">
 
  <div id="footerimg">
 
   <img src="https://static.igem.org/mediawiki/2015/b/b9/KU_Leuven_Zebra_spots_wiki_footer_main.png" width="95%">
 
   <img src="https://static.igem.org/mediawiki/2015/b/b9/KU_Leuven_Zebra_spots_wiki_footer_main.png" width="95%">
 
   </div>
 
   </div>
 +
<div class="logonormal2">
 
  <div id="gimv">
 
  <div id="gimv">
 
       <a href="http://www.gimv.com/en"><img src="https://static.igem.org/mediawiki/2015/a/ac/KU_Leuven_Logo_Gimv_Transparant.png" alt="Gimv" width="95%"></a>
 
       <a href="http://www.gimv.com/en"><img src="https://static.igem.org/mediawiki/2015/a/ac/KU_Leuven_Logo_Gimv_Transparant.png" alt="Gimv" width="95%"></a>
 
   </div>
 
   </div>
 +
<div class = "whiterow"></div>
 +
<div id="sopach">
 +
      <a href="http://www.sopachem.com/"><img src="https://static.igem.org/mediawiki/2015/5/55/KU_Leuven_Sopachem.jpeg" alt="Sopachem" width="95%"></a>
 +
  </div>
 +
</div>
 
   <div id="machery">
 
   <div id="machery">
 
       <a href="http://www.filterservice.be/"><img src="https://static.igem.org/mediawiki/2015/4/41/KU_Leuven_Macherey_Nagel_logo_transparant.png" alt="Machery Nagel" width="95%"></a>
 
       <a href="http://www.filterservice.be/"><img src="https://static.igem.org/mediawiki/2015/4/41/KU_Leuven_Macherey_Nagel_logo_transparant.png" alt="Machery Nagel" width="95%"></a>
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       <a href="https://www.sigmaaldrich.com/belgium-nederlands.html"><img src="https://static.igem.org/mediawiki/2015/4/4b/KUL_Sigma-Aldrich_logo_transparant.png" alt="Sigma-Aldrich" width="95%"></a>
 
       <a href="https://www.sigmaaldrich.com/belgium-nederlands.html"><img src="https://static.igem.org/mediawiki/2015/4/4b/KUL_Sigma-Aldrich_logo_transparant.png" alt="Sigma-Aldrich" width="95%"></a>
 
     </div>
 
     </div>
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     <div id="egilabo">
+
    <div class="whiterow"></div>
 +
     <div id="egilab">
 
       <a href="http://www.egilabo.be/"><img src="https://static.igem.org/mediawiki/2015/e/e9/KUL_Egilabo_logo_transparant.png" alt="Egilabo" width="95%"></a>
 
       <a href="http://www.egilabo.be/"><img src="https://static.igem.org/mediawiki/2015/e/e9/KUL_Egilabo_logo_transparant.png" alt="Egilabo" width="95%"></a>
 
     </div>
 
     </div>
−
   </div>  
+
    <div class="whiterow"></div>
 +
    <div id="novolab">
 +
      <a href="https://www.novolab.be/"><img src="https://static.igem.org/mediawiki/2015/4/4c/KU_Leuven_Novalab.png" alt="Novolab" height="95%"></a>
 +
    </div>
 +
   </div>  
 
</div>
 
</div>
  

Latest revision as of 10:16, 20 October 2015

Logo

Newsfeed

Week 12: the 14th-18th of September

team

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-Writing and constructing wiki pages.
-Our sweaters and T-shirts arrived!

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-Cloning our biobricks by use of the plasmid backbone originating from the InterLab Measurement Study. As a result,the biobricks CheZ-GFP, LuxI-His, LuxR-E and Ag43-YFP were obtained!
-Assembling the biobrick CheZ-GFP behind a strong promoter and RBS in order to characterize this biobrick.
-Assembling a strong promoter with GFP in order to compare the fluorescence to our library of promoters generated during the InterLab Measurement Study. Unfortunately the strong promoter was not green which indicates that the ligation did not work.
-Performing the OHHL quantification method and the leucine quantification method.

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-Making new continuous model simulation videos simulating each part of the model separately.

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-Working further on our educational card game about synthetic biology.

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-Our wiki game is online!

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-Graphical design of our wiki
-Design of our poster

Week 11: the 7th-11th of September

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- On Monday, we had our ‘iGEM Symposium Day on Synthetic Biology, Cell Systems and Ethics in Biochemistry’

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- Constructing the BioBricks LuxI-His, RBS-LuxI-His and CheZ-GFP, RBS-CheZ-GFP by high fidelity tail-PCR, digestion and ligation in pSB1C3
- Transforming these BioBricks in E. cloni, testing colonies by PCR and preparing for sequencing. The high fidelity PCR and cloning of other potential BioBricks was repeated.
- Making our strains ΔtarΔtsr and ΔtarΔcheZ electrocompetent
- Checking our colonies containing the assembled gBlocks by restriction mapping showed the presence of the original pUC19 vector in our samples. Treating the assembled gBlocks with DpnI should circumvent this since DpnI only cuts the methylated DNA.
- Digesting with DpnI eliminated the original pUC19 and not a single colony grew on the control plate transformed with plasmid only. Analysing the positive colonies showed presence of pUC19.

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- Hybrid model: implementing periodic boundary conditions
- Hybrid model: incorporating the first draft of the internal model into hybrid model
- Attendeding MATLAB webinar: Optimizing and Accelerating your MATLAB Code

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- Preparing games and presentations for school visits
- Visiting schools to teach children about DNA and synthetic biology
- Analyzing the results of our survey

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- Writing texts for the Wiki
- Putting our 'Secret'-page online!

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- Working on the design of the sweaters

Week 10: the 31thAugust-6th of September

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- We have new sponsors: Gips Mineral, Genzyme and VWR!
- We kindly received gadgets from our sponsors to distribute in our goody bags for the Symposium
- Ordering our self-designed bacteria stickers

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- Miniprepping and analyzing the assembled gBlocks is showing the assembled plasmid, but also the presence of pUC19 used as template. Transformation of the gel-purified correct plasmid was done in E. Cloni
- In parallel, assembling LuxI with gBlocks 1+2+3 and gBlocks 5+6 with gBlocks 1+2+3 was conducted with colonies that did not contain any pUC. Analysis of the gel was not showing any sign of digestion.

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- Collaboration with Toulouse: diffusion in Comsol
- Implementation of cells algorithm for nearest neighbor search
- Optimization of the code
- Meeting with Dirk Roose
- Examining effects of different contributions to cell movement in hybrid mode

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- Making a presentation and writing the scenario for our symposium
- Arranging our symposium
- Working on an educational game about synthetic biology

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- Adapting the team page: our mentors and advisors are online!
- Adapting our website for mobiles
- Making a game for our secret page

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- Designing our iGEM banner
- Designing our sweaters
- Adapting buttons of the wiki
- Designing the bacterium stickers of our promoter and supervisor
- Designing funny pictures for the secret page

Week 8: the 17th-21th of August

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- We are in the track ‘New applications’
- Receiving offers for sweaters, stickers and tattoos
- Collaboration: Skype session with TU Delft
- Collaboration: Measuring pH of tap water and river water & sending samples to the iGEM team of York
- Collaboration: Interviewing people on the street for chewing-gum survey of the iGEM team of Aix-Marseille Université
- Translating our survey in French for further distribution in Wallonie.

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- Searching more information about lab safety
- Analyzing the results of the InterLab Measurement Study

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- Preparing electrocompetent cells
- Optimizing the tail PCR to make Biobricks
- Cloning the PCR products into pSB1C3, transforming the plasmids and screening of colonies to find the correct insert
- Transforming the devices for the Interlab Measurement Study
- Preparation of the standard curve based on fluorescein and measuring the fluorescence of the new devices
- Assembling the gBlocks using NEBuilder® HiFi DNA Assembly Master Mix and transforming the checked pcr products in electrocompetent E. cloni

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- Meeting with Tim Odenthal
- Optimization of hybrid model code
- Implementation of cell-cell interactions, including repulsion as well as attraction

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- Contacting keynote speakers for the Symposium
- Organizing symposium
- Mailing schools to give a playful course about synthetic biology
- Deciding on the rules for a nice card game about synthetic biology

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- Adapting pages
- Putting ‘Symposium’-page online

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- Making informative images for the Research-page
- Making buttons for the wiki
- Designing bacteria-stickers for use in schools and as gadgets
- Continuing with the design of our sweaters
- Designing funny images for our secret page on the wiki

Week 7: the 10th-14th of August

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- Our flyers and sponsor brochures arrived!
- Conducting a survey about synthetic biology interviewing people on the street
- Working on a team song

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- Making a protocol for leucine detection
- Researching lab safety

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- Switching from transformation of chemocompetent cells to electroporation due to low efficiency for the Interlab Measurement Study
- Checking the intactness of other genes in the tar-tap-cheRBYZ operon by PCR
- Ordering NEBuilder to repeat the failed Gibson Assembly
- Making three BioBricks starting from our gBlocks by tail PCR and restriction digestion
- Ordering materials for leucine and AHL detection

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- Finishing implementation of the hybrid model I in 2D, including ADI scheme for PDE part
- Extending hybrid model II to 2D
- Running hybrid model simulations
- Finishing report Simbiology
- Contacting Toulouse team for collaboration
- Contacting professors for possible collaboration

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- Brainstorming about educational games

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- Putting our ‘Newsfeed’ & ‘Research’-page online!
- Implementing an EasySwitch button and a Lightbox

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- Making informative images for the ‘Research’-page
- Starting the design of sweaters
- Photoshopping funny images for our secret page

Week 6: the 3th-7th of August

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- We received lab material kindly provided by KOLO Instruments - Paulussen Freddy
- Searching hotels in Bordeaux for the iGEM Meetup France 2015
- Ordering folders and brochures

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- Writing protocols for AHL detection
- Writing abstract about literature on Wiki

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- Confirming the double knock-outs and checking the intactness
- Performing a motility test to verify the phenotypical change of knocking out cheZ
- Assembling the gBlocks using the Gibson Assembly Method
- Transforming E. cloni with the BioBricks J23101, I12504, J23106 and J23117 to participate in the iGEM 2015 Measurement Interlab Study.

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- Writing a report about Simbiology
- Extending the Hybrid Model to 2D

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- Contacting potential keynote speakers for the symposium

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- Putting the History-page online

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- Making images for wiki-icons for subsections of the Newsfeed
- Making tattoo-images to use as gadgets

Week 5: the 27th-31th of July

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- Booking plane tickets to Boston
- Booking hotels Boston
- Two new companies are sponsoring: Eppendorf & LRD!

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- Preparing the protocol for plasmid assembly
- Making the protocol for leucine detection
- Making protocol for AHL detection
- Designing & ordering 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 correct double knock-outs

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- Finishing the 2D models on a 100 by 100 grid

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- Contacting potential keynote speakers for the symposium
- Making a survey about public perception of synthetic biology
- Mailing the Bordeaux iGEM team for the France Meetup 2015

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- Putting the Modeling page online
- Adjusting the description of the project

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- Designing images for wiki team presentation
- Designing images for wiki icons for subsections of the Newsfeed
- Designing animations that represent our pattern forming bacteria

Week 4: the 20th-24th of July

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- Meeting the Toulouse iGEM team on 07/21/2015 at ESI (Expo Science International) in Brussels

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- Searching parameters necessary in mathematical model
- Designing and ordering the designed plasmid in gBlocks

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- Checking the removal of the kanamycin cassette in the Δtar strain and make a stock of our successful knockout
- Preparing phage P1 lysate to make 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

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- Inviting potential keynote speakers for the symposium

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- Adding the Team page

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- Making images for wiki team presentation
- Designing the flyer
- Making images of animals with new patterns for the wiki

Week 3: the 13th-17th of July

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- Constructing the plasmids
- Designing & ordering primers for controlling the knock-out proces
- Researching an alternative knock-out technique for double knockouts

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- Calculating the transformation efficiency of competent E. cloni cells
- Ordering 3 knock-out strains (Δtar, Δtsr and ΔcheZ) & preparing a stock
- Ordering Chromobacterium violaceum CV026 transposon mutant for usage in AHL detection & preparing a stock
- Removing the kanamycin resistance gene of the Δtar strain 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
- Implementing biologically relevant parameters
- Making a 1D model with pdepe in Matlab
- Exploring symbiology
- Making a 2D model with the PDE toolbox in Matlab (not ready yet)

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- Preparing e-mail for symposium and contacting possible keynote speakers

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- Putting the description of our project online

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- Making images for the wiki

Week 2: the 6th-10th of July

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- Discussion with modeling team: which parameters do they need?
- Searching experiments for quantification of specific proteins, small molecules and amino acids
- Deciding on promoters of the plasmid
- Constructing the plasmids
- Making a working scheme (strategy)

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- Preparing LB agar medium
- Preparing competent cells (E. cloni) and testing their competency

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- Researching literature about hybrid models
- Further working on single cell agent-based model
- Implementing a simple one-dimensional hybrid model
- Exploring PDE Toolbox
- Working on an implicit continuous model
- Trying to simulate pattern formation of bacteria in COMSOL

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- First meeting about school projects
- Brainstorming about a symposium

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- Designing images and layout of wiki
- Designing images and brochure for sponsors

Week 1: the 1st-3th of July

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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
- Taking 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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- Setting up GitHub
- Constructing a simple single cell agent-based model
- Working on an explicit discretization of a continuous model

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- 'Coming soon' page is online

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- Designing images and layout of wiki
- Designing images and brochure for sponsors

History

Stroll down our memory lane !

Achievements

Check our achievements.

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Go back to the Notebook page.
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History

Stroll down our memory lane.
History

Check our achievements.
Back

Go back to the Notebook page.

Contact

Address: Celestijnenlaan 200G room 00.08 - 3001 Heverlee
Telephone: +32(0)16 32 73 19
Email: igem@chem.kuleuven.be