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

 
(46 intermediate revisions by 5 users not shown)
Line 45: Line 45:
  
 
<div id="showclass">
 
<div id="showclass">
−
  <div id="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>
 
  <div class="row">
 
  <div class="row">
 
  <div class="img" id="social">
 
  <div class="img" id="social">
Line 78: Line 78:
 
  </div>
 
  </div>
 
</div>
 
</div>
 +
</div>
 +
 +
<div id="showclassm">
 +
<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">
 +
  <img src="https://static.igem.org/mediawiki/2015/4/45/KU_Leuven_Wiki_Button_-_Communication.png" width="100%">
 +
</div>
 +
<div class="img" id="wikim">
 +
  <img src="https://static.igem.org/mediawiki/2015/c/c3/KU_Leuven_Wiki_Button_-_Wiki.png" width="100%">
 +
</div>
 +
<div class="img" id="labm">
 +
  <img src="https://static.igem.org/mediawiki/2015/c/ca/KU_Leuven_Wiki_Button_-_Wetlab.png" width="100%">
 +
</div>
 +
<div class="img" id="modelm">
 +
  <img src="https://static.igem.org/mediawiki/2015/d/db/KU_Leuven_Wiki_Button_-_Modelling.png" width="100%">
 +
</div>
 +
<div class="img" id="artm">
 +
  <img src="https://static.igem.org/mediawiki/2015/f/f2/KU_Leuven_Wiki_Button_-_Graphics.png" width="100%">
 +
</div>
 +
<div class="img" id="evom">
 +
  <img src="https://static.igem.org/mediawiki/2015/8/8c/KU_Leuven_Wiki_Button_-_Education.png" width="100%">
 +
</div>
 +
<div class="img" id="literaturem">
 +
  <img src="https://static.igem.org/mediawiki/2015/8/82/KU_Leuven_Wiki_Button_-_Literature.png" width="100%">
 +
</div>
 +
<div class="img" id="generalm">
 +
  <img src="https://static.igem.org/mediawiki/2015/e/ed/KUL_Wiki_Button_-_General.png" width="100%">
 +
</div>
 
</div>
 
</div>
  
Line 93: Line 121:
  
 
<div class="time">
 
<div class="time">
−
     <div class="circle"></div> <h2>Week 9: the 24<sup>th</sup>-28<sup>th</sup> of August</h2>
+
     <div class="circle"></div> <h2>Week 12: the 14<sup>th</sup>-18<sup>th</sup> of September</h2>
 
   </div>
 
   </div>
  
Line 104: Line 132:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Ordered hoodies & T-shirts <br/>
+
<p>-Writing and constructing wiki pages. </br>
−
-Collaboration: Skype with NAIT_Edmonton, Canada<br/>
+
-Our sweaters and T-shirts arrived!</p>
−
-Contacting sponsors (new sponsor: Imec) & driving to sponsors for giving the sponsoring brochure </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>
Line 112: Line 154:
  
 
   <div class="part">
 
   <div class="part">
−
   <div class="literature">
+
   <div class="model">
 
     <div class="partimg">
 
     <div class="partimg">
−
     <img src="https://static.igem.org/mediawiki/2015/8/82/KU_Leuven_Wiki_Button_-_Literature.png" alt="team" width="100%">
+
     <img src="https://static.igem.org/mediawiki/2015/d/db/KU_Leuven_Wiki_Button_-_Modelling.png" alt="team" width="100%">
−
     <div class="hideliterature"><p>hide</p></div>
+
     <div class="hidemodel"><p>hide</p></div>
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-We finished the lab safety form </p>
+
<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="circle"></div> <h2>Week 11: the 7<sup>th</sup>-11<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>- On Monday, we had our ‘iGEM Symposium Day on Synthetic Biology, Cell Systems and Ethics in Biochemistry’
 +
</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 130: Line 241:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Because two colony of the devices containing the promoter J23117 did not give the expected bands after restriction mapping, we repeated our fluorescence and absorbance measurements with other colonies. In the end, all the selected colonies for the data analysis were confirmed by restriction mapping. <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/>
−
-Last week, we constructed the biobricks LuxI, LuxR and IlvE by performing a phusion high-fidelity tail-PCR on our gBlocks. This week, we digested our biobricks LuxI, LuxR and IlvE with BcuI and EcoRI and purified this with help of a GeneJET PCR Purification Kit of Thermo Fisher Scientific. We ligated this with cutted pSB1C3 by use of T4 ligase. The ligated plasmid was electroporated in <i>E. cloni</i>.  After performing a colony PCR and restriction mapping, we concluded that the biobricks LuxR and IlvE were correct. So, we still need to repeat the construction of the LuxI biobrick. <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/>
−
-We transformed Ag43 originating from the iGEM 2015 kit in <i>E. cloni</i>. Thereafter, we made a liquid culture and mini prepped this. <br/>
+
- Making our strains Δ<i>tar</i>Δ<i>tsr</i> and Δ<i>tar</i>Δ<i>cheZ</i> electrocompetent<br/>
−
-This Friday the Gibson Assembly was repeated, but this time a pUC19 vector was added. This vector was first modified by tail PCR in this way that the overhangs would match those of the gBlocks. This DNA was electroporated in <i>E. cloni</i>.
+
- 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/>
−
</p>
+
- 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>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 146: Line 257:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Meeting with PhD students from the lab of Jan Michiels <br/>
+
<p>- Hybrid model: implementing periodic boundary conditions <br/>
−
-Meeting with VSC (Vlaams Supercomputer centrum) <br/>
+
- Hybrid model: incorporating the first draft of the internal model into hybrid model <br/>
−
-First step in adding internal model to hybrid model <br/>
+
- Attendeding MATLAB webinar: Optimizing and Accelerating your MATLAB Code
−
-Extending hybrid model with interaction</p>
+
</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 161: Line 272:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Updating Facebook and Twitter <br/>
+
<p>- Updating Facebook & Twitter<br/>
−
-Inviting people for symposium <br/>
+
- Adapting text of interview with Jo De Wachter</p>
−
-Spreading the survey on social media</p>
+
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 175: Line 285:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Organizing symposium <br/>
+
<p>- Preparing games and presentations for school visits<br/>
−
-Mailing schools to give a playful course about synthetic biology <br/>
+
- Visiting schools to teach children about DNA and synthetic biology<br/>
−
-Inviting people for symposium <br/>
+
- Analyzing the results of our survey</p>
−
-Contacting possible panel members + moderator of the debate of the symposium
+
−
</p>
+
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 191: Line 299:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Adapting pages
+
<p>- Writing texts for the Wiki<br/>
 +
- Putting our 'Secret'-page online! <br/>
 
</p>
 
</p>
 
     </div>
 
     </div>
Line 204: Line 313:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Design the card game about synthetic biology <br/>
+
<p>- Working on the design of the sweaters
−
-Finishing touch of the bacteria-stickers for use in schools and as gadget <br/>
+
−
-Making funny images for our secret page on our wiki <br/>
+
−
-Design T-shirt & hoody images
+
 
</p>
 
</p>
 
     </div>
 
     </div>
Line 214: Line 320:
 
  </div>
 
  </div>
  
 +
<div class="time">
 +
    <div class="circle"></div> <h2>Week 10: the 31<sup>th</sup>August-6<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>- We have new sponsors: Gips Mineral, Genzyme and VWR! <br/>
 +
- We kindly received gadgets from our sponsors to distribute in our goody bags for the Symposium<br/>
 +
- Ordering our self-designed bacteria stickers </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>- 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, 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>
 +
    </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>- Collaboration with Toulouse: diffusion in Comsol <br/>
 +
- Implementation of cells algorithm for nearest neighbor search <br/>
 +
- Optimization of the code <br/>
 +
- Meeting with Dirk Roose <br/>
 +
- Examining effects of different contributions to cell movement in hybrid mode</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>- Promoting the symposium <br/>
 +
- Updating Facebook and Twitter
 +
- Press release for symposium</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>- Making a presentation and writing the scenario for our symposium <br/>
 +
- Arranging our symposium<br/>
 +
- Working on an educational 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>- Adapting the team page: our mentors and advisors are online! <br/>
 +
- Adapting our website for mobiles <br/>
 +
- Making a game for our secret page</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>- Designing our iGEM banner <br/>
 +
- Designing our sweaters <br/>
 +
- Adapting buttons of the wiki <br/>
 +
- Designing the bacterium stickers of our promoter and supervisor <br/>
 +
- Designing funny pictures for the secret page
 +
</p>
 +
    </div>
 +
  </div>
 +
  </div>
 +
</div>
  
  
Line 229: Line 442:
 
     </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>
Line 247: Line 460:
 
     </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>
Line 260: Line 473:
 
     </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 E. cloni 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 E. cloni. 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>
Line 278: Line 490:
 
     </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>
Line 293: Line 504:
 
     </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>
Line 307: Line 518:
 
     </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>
Line 322: Line 533:
 
     </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>
Line 335: Line 546:
 
     </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>
Line 357: Line 568:
 
     </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>
Line 372: Line 583:
 
     </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>
Line 385: Line 596:
 
     </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 401: 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 418: 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 430: 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 443: 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 456: 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 476: 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 491: 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 504: 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 E. cloni 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 519: 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 532: 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 544: 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 556: 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 568: 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 587: 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 601: 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 616: 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 629: 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 641: 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 654: 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 668: 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 681: 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 701: 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 713: 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 726: 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 739: 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 753: 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 769: 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 782: 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 794: 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 813: 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 827: 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 842: 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 859: 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 874: 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 886: 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 898: 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 916: 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 933: 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 (E. cloni) and test competency</p>
+
- Preparing competent cells (<i>E. cloni</i>) and testing their competency</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 946: 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 963: 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 977: 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 990: 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 1,009: 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>
Line 1,025: Line 1,232:
 
     </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>
Line 1,037: Line 1,244:
 
     </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>
Line 1,051: Line 1,258:
 
     </div>
 
     </div>
 
     <div class="partnews">
 
     <div class="partnews">
−
<p>-Link Facebook with Twitter</p>
+
<p>- Linking Facebook and Twitter</p>
 
     </div>
 
     </div>
 
   </div>
 
   </div>
Line 1,063: Line 1,270:
 
     </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>
Line 1,075: Line 1,282:
 
     </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 1,085: Line 1,292:
  
 
<div class="subsections">
 
<div class="subsections">
−
<a href="https://2015.igem.org/Team:KU_Leuven/Notebook">
 
 
<div class="subsectionwrapper">
 
<div class="subsectionwrapper">
 
<div class="subimgrow">
 
<div class="subimgrow">
 +
<div class="whitespace1"></div>
 
<div class="subimg">
 
<div class="subimg">
−
  <img src="https://static.igem.org/mediawiki/2015/2/2b/KU_Leuven_Monocotyl.jpg" width="100%" height="100%" >
+
<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%">
 +
</a>
 
</div>
 
</div>
−
  <div class="subtext">
+
 
 +
<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>
 +
</div>
 +
 
 +
<div class="whitespace">
 +
</div>
 +
 
 +
<div class="subimg">
 +
<a href="https://2015.igem.org/Team:KU_Leuven/Notebook">
 +
<img src="https://static.igem.org/mediawiki/2015/c/cb/KUL_Wiki_Button_-_Back.png" width="100%" >
 +
</a>
 +
</div>
 +
<div class="whitespace1"></div>
 +
</div>
 +
 
 +
<div class="subtextrow">
 +
<div class="whitespace1"></div>
 +
 
 +
<div class="subtext">
 +
<a href="https://2015.igem.org/Team:KU_Leuven/Notebook/History">
 +
<h2>History</h2>
 +
<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>
 +
</div>
 +
 
 +
<div class="whitespace">
 +
</div>
 +
 
 +
<div class="subtext">
 +
<a href="https://2015.igem.org/Team:KU_Leuven/Notebook">
 
  <h2>Back</h2>
 
  <h2>Back</h2>
−
</div>
+
<p>Go back to the Notebook page.</p>
 +
</a>
 
</div>
 
</div>
 +
<div class="whitespace1"></div>
 +
</div>
 +
 +
<div class="subimgreadmore">
 +
<div class="whitespace1"></div>
 +
 +
<div class="subimgrm">
 +
<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>
 
</div>
 
</a>
 
</a>
 +
</div>
 +
 +
<div class="whitespace">
 +
</div>
 +
 +
<div class="subimgrm">
 +
<a href="https://2015.igem.org/Team:KU_Leuven/Notebook/Achievements">
 +
<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">
 +
<div id="back">
 +
<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="whitespaceside"></div>
 +
</div>
 +
 +
 +
<div class="subimgrowm">
 +
<div class="subimgm">
 +
<a href="https://2015.igem.org/Team:KU_Leuven/Notebook/History">
 +
<b>History</b>
 +
<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="subtextm">
 +
<a href="https://2015.igem.org/Team:KU_Leuven/Notebook/History">
 +
<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>
 +
</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">
 +
<b>Back</b>
 +
<img src="https://static.igem.org/mediawiki/2015/c/cb/KUL_Wiki_Button_-_Back.png" width="100%" >
 +
</a>
 +
</div>
 +
 +
<div class="whitespace">
 +
</div>
 +
 +
<div class="subtextm">
 +
<a href="https://2015.igem.org/Team:KU_Leuven/Notebook">
 +
<p>Go back to the Notebook page.</p>
 +
</a>
 +
</div>
 +
</div>
 +
 +
</div>
 
</div>
 
</div>
  
Line 1,104: Line 1,461:
 
<p style="font-size:1.3em; text-align: center">
 
<p style="font-size:1.3em; text-align: center">
 
Address: Celestijnenlaan 200G room 00.08 - 3001 Heverlee<br>
 
Address: Celestijnenlaan 200G room 00.08 - 3001 Heverlee<br>
−
Telephone n°: +32(0)16 32 73 19<br>
+
Telephone: +32(0)16 32 73 19<br>
−
Mail: igem@chem.kuleuven.be<br>   
+
Email: igem@chem.kuleuven.be<br>   
 
</p>
 
</p>
 
</div>
 
</div>
 
</div>
 
</div>
 +
 +
<div class="whiterow"></div>
  
 
<div id="footer">
 
<div id="footer">
Line 1,145: Line 1,504:
 
   <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">
Line 1,155: Line 1,517:
 
   </div>
 
   </div>
 
<div id="kolo">
 
<div id="kolo">
−
       <a href=""><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>
  
Line 1,166: Line 1,525:
 
       <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>
Line 1,185: Line 1,564:
 
       <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>
−
     <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>
  
Line 1,194: Line 1,578:
  
 
<script>
 
<script>
−
  $( ".hidesocial" ).click(function() {
+
$( ".hidesocial" ).click(function() {
 
       $(".social").hide();
 
       $(".social").hide();
 
        
 
        
Line 1,200: Line 1,584:
  
 
   $( "#social" ).click(function() {
 
   $( "#social" ).click(function() {
 +
      $(".social").show();
 +
      $(".wiki").hide();
 +
      $(".evo").hide();
 +
      $(".general").hide();
 +
      $(".model").hide();
 +
      $(".lab").hide();
 +
      $(".art").hide();
 +
      $(".literature").hide();
 +
    });
 +
 +
  $( "#socialm" ).click(function() {
 
       $(".social").show();
 
       $(".social").show();
 
       $(".wiki").hide();
 
       $(".wiki").hide();
Line 1,216: Line 1,611:
  
 
   $( "#wiki" ).click(function() {
 
   $( "#wiki" ).click(function() {
 +
      $(".social").hide();
 +
      $(".wiki").show();
 +
      $(".evo").hide();
 +
      $(".general").hide();
 +
      $(".model").hide();
 +
      $(".lab").hide();
 +
      $(".art").hide();
 +
      $(".literature").hide();
 +
    });
 +
 +
  $( "#wikim" ).click(function() {
 
       $(".social").hide();
 
       $(".social").hide();
 
       $(".wiki").show();
 
       $(".wiki").show();
Line 1,232: Line 1,638:
  
 
   $( "#evo" ).click(function() {
 
   $( "#evo" ).click(function() {
 +
      $(".social").hide();
 +
      $(".wiki").hide();
 +
      $(".evo").show();
 +
      $(".general").hide();
 +
      $(".model").hide();
 +
      $(".lab").hide();
 +
      $(".art").hide();
 +
      $(".literature").hide();
 +
    });
 +
 +
  $( "#evom" ).click(function() {
 
       $(".social").hide();
 
       $(".social").hide();
 
       $(".wiki").hide();
 
       $(".wiki").hide();
Line 1,248: Line 1,665:
  
 
   $( "#general" ).click(function() {
 
   $( "#general" ).click(function() {
 +
      $(".social").hide();
 +
      $(".wiki").hide();
 +
      $(".evo").hide();
 +
      $(".general").show();
 +
      $(".model").hide();
 +
      $(".lab").hide();
 +
      $(".art").hide();
 +
      $(".literature").hide();
 +
    });
 +
 +
  $( "#generalm" ).click(function() {
 
       $(".social").hide();
 
       $(".social").hide();
 
       $(".wiki").hide();
 
       $(".wiki").hide();
Line 1,264: Line 1,692:
  
 
   $( "#model" ).click(function() {
 
   $( "#model" ).click(function() {
 +
      $(".social").hide();
 +
      $(".wiki").hide();
 +
      $(".evo").hide();
 +
      $(".general").hide();
 +
      $(".model").show();
 +
      $(".lab").hide();
 +
      $(".art").hide();
 +
      $(".literature").hide();
 +
    });
 +
 +
  $( "#modelm" ).click(function() {
 
       $(".social").hide();
 
       $(".social").hide();
 
       $(".wiki").hide();
 
       $(".wiki").hide();
Line 1,280: Line 1,719:
  
 
   $( "#lab" ).click(function() {
 
   $( "#lab" ).click(function() {
 +
      $(".social").hide();
 +
      $(".wiki").hide();
 +
      $(".evo").hide();
 +
      $(".general").hide();
 +
      $(".model").hide();
 +
      $(".lab").show();
 +
      $(".art").hide();
 +
      $(".literature").hide();
 +
    });
 +
 +
  $( "#labm" ).click(function() {
 
       $(".social").hide();
 
       $(".social").hide();
 
       $(".wiki").hide();
 
       $(".wiki").hide();
Line 1,296: Line 1,746:
  
 
   $( "#art" ).click(function() {
 
   $( "#art" ).click(function() {
 +
      $(".social").hide();
 +
      $(".wiki").hide();
 +
      $(".evo").hide();
 +
      $(".general").hide();
 +
      $(".model").hide();
 +
      $(".lab").hide();
 +
      $(".art").show();
 +
      $(".literature").hide();
 +
    });
 +
 +
  $( "#artm" ).click(function() {
 
       $(".social").hide();
 
       $(".social").hide();
 
       $(".wiki").hide();
 
       $(".wiki").hide();
Line 1,322: Line 1,783:
 
     });
 
     });
  
−
   $( "#showall" ).click(function() {
+
   $( "#literaturem" ).click(function() {
 +
      $(".social").hide();
 +
      $(".wiki").hide();
 +
      $(".evo").hide();
 +
      $(".general").hide();
 +
      $(".model").hide();
 +
      $(".lab").hide();
 +
      $(".art").hide();
 +
      $(".literature").show();
 +
    });
 +
 
 +
  $( ".showall" ).click(function() {
 
       $(".social").show();
 
       $(".social").show();
 
       $(".wiki").show();
 
       $(".wiki").show();
Line 1,332: Line 1,804:
 
       $(".literature").show();
 
       $(".literature").show();
 
     });
 
     });
 +
 +
$( ".summarytext" ).mouseleave(function() {
 +
      $("#showclass").hide();
 +
      $("#showclassm").hide();
 +
});
 +
 +
 +
$( ".summarytext" ).mouseenter(function() {
 +
      $("#showclass").show();
 +
      $("#showclassm").show();
 +
});
 +
 +
$( ".summaryheader" ).mouseenter(function() {
 +
      $("#showclass").show();
 +
      $("#showclassm").show();
 +
});
 +
 +
 +
$( "#showclass" ).mouseenter(function() {
 +
      $("#showclass").show();
 +
      $("#showclassm").show();
 +
});
 +
 +
$( "#showclassm" ).mouseenter(function() {
 +
      $("#showclass").show();
 +
      $("#showclassm").show();
 +
});
 +
  
 
</script>
 
</script>
  
 
</html>
 
</html>

Latest revision as of 10:16, 20 October 2015

Logo

Newsfeed

Week 12: the 14th-18th of September

team

hide

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

team

hide

-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.

team

hide

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

team

hide

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

team

hide

-Our wiki game is online!

team

hide

-Graphical design of our wiki
-Design of our poster

Week 11: the 7th-11th of September

team

hide

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

team

hide

- 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.

team

hide

- 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

team

hide

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

team

hide

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

team

hide

- Working on the design of the sweaters

Week 10: the 31thAugust-6th of September

team

hide

- 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

team

hide

- 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.

team

hide

- 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

team

hide

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

team

hide

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

team

hide

- 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

team

hide

- 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.

team

hide

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

team

hide

- 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

team

hide

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

team

hide

- 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

team

hide

- Adapting pages
- Putting ‘Symposium’-page online

team

hide

- 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

team

hide

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

team

hide

- Making a protocol for leucine detection
- Researching lab safety

team

hide

- 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

team

hide

- 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

team

hide

- Brainstorming about educational games

team

hide

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

team

hide

- 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

team

hide

- 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

team

hide

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

team

hide

- 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.

team

hide

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

team

hide

- Contacting potential keynote speakers for the symposium

team

hide

- Putting the History-page online

team

hide

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

Week 5: the 27th-31th of July

team

hide

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

team

hide

- 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

team

hide

- Making double knock-out strains by P1 transduction
- Performing PCR and gel electrophoresis to confirm correct double knock-outs

team

hide

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

team

hide

- 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

team

hide

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

team

hide

- 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

team

hide

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

team

hide

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

team

hide

- 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

team

hide

- Simulating cell A and cell B in SymBiology
- Looking for usable constants
- Adapting the 2D continuous model

team

hide

- Inviting potential keynote speakers for the symposium

team

hide

- Adding the Team page

team

hide

- 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

team

hide

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

team

hide

- 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

team

hide

- 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)

team

hide

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

team

hide

- Putting the description of our project online

team

hide

- Making images for the wiki

Week 2: the 6th-10th of July

team

hide

- 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)

team

hide

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

team

hide

- 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

team

hide

- First meeting about school projects
- Brainstorming about a symposium

team

hide

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

Week 1: the 1st-3th of July

team

hide

- 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

team

hide

- Searching for strains and BioBricks for our circuit

team

hide

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

team

hide

- 'Coming soon' page is online

team

hide

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

History

Stroll down our memory lane !

Achievements

Check our achievements.

Back

Go back to the Notebook page.
Read more
Read more
Read more
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