Revision as of 00:58, 20 October 2016

NOTEBOOK

Labjournal 2016

Lab Weeks

For half a year we were working in the wet lab , developed a pipetting robot and simulated the molecular dynamics of our proteins . As well we would like to highlight certain social events which helped us to further improve our team spirit.

Our iGEM year started with weekly team meetings on tuesdays in January.
On February 27 and 28 we officially iniated the project with our Kickoff-Event in which teams have been formed and weekly teamleader meetings were set.

To teach the new members all the needed basics for working in the lab and genetic engineering in general, the experienced students offered classes like a snapgene workshop (March 4), how to use scifinder (March 12) and a cloning strategies workshop (March 17).


Lab Week 1: April 18 - April 24		This week, we organised the lab work before the actual work started.
		Robotics Meeting with the people interested in the technical part of the project, discussing the task and the possible ideas.
		We met on Tuesday with the whole team.


Lab Week 2: April 25 - Mai 1		This week, we organised the lab work before the actual work started.
		Robotics Decision who will participate in the project and which direction we chose. 4 people form the team and we do some research. Idea is to redesign a 3D printer
		We went to the local Weinlagenwanderung to get out, drink some quality wine and enjoy some great views.


Lab Week 3: May 2 - May 8		This week, we organised the lab work before the actual work started.
		Robotics Meeting and making a team commitment.
		We met on Tuesday with the whole team.


Lab Week 4: May 9 - May 15		This week, we organised the lab work before the actual work started.
		Robotics Brainstorm the possible ideas, discussing the found approaches. Need of more research
		We met on Tuesday with the whole team.


Lab Week 5: May 16 - May 22		This week, we organised the lab work before the actual work started.
		Robotics Deciding the components and the programming language. Details still open.
		We met on Tuesday with the whole team.


Lab Week 6: May 23 - May 29		miniColicin The BBa_K1976048 was made by performing a PCR on a product synthesized by IDT, using the primers prefix right and suffix right and digesting it using EcoRI and PstI. Following that it was ligated into the backbone pSB1C3 which was digested the same way and dephosphorylated, using our standard protocol for the antarctic phosphatase. Following that using the standard T4 protocol, these fragments were ligated together. Lastly E. Coli Top10 have been transformed with the ligation.
		Robotics Made decision about the chassis, an Ultimaker2 clone. Pumping system will be a syringe pump from hackaday.io Two will look for the needed materials for the chassis, one for the materials for the syringe pump and one will think about the detection with an optical detection system.
		We met on Tuesday with the whole team.


Lab Week 7: May 30 - June 5		miniColicin The brick BBa_K1976049 was created by performing PCR on a product synthesized by IDT, using the primers prefix right and suffix right and digesting it using EcoRI and PstI. Following that it was ligated into the backbone pSB1C3 which was digested the same way and dephosphorylated, using our standard protocol for the antarctic phosphatase. Following that using the standard T4 protocol, these fragments were ligated together. Lastly E. Coli Top10 have been transformed with the ligation
		We continued with the work from the last weeks
		We met on Tuesday with the whole team.


Lab Week 8: June 6 - June 12		Hier könnte Ihr labjournal stehen!
		Robotics We start to design the required CADs and learn the CAD software to do so. One of us is still doing some research about the optical detection system and how to do it.
		We met on Tuesday with the whole team.


Lab Week 9: June 13 - June 19		Hier könnte Ihr labjournal stehen!
		We continued with the work from the last weeks.
		The group had a weekend in the Austrian Alps, where we decided on our Human Practices project.


Lab Week 10: June 20 - June 26		Hier könnte Ihr labjournal stehen!
		Robotics CADs are ready and the bill of materials is finished with the supplier information. We order the parts and talk to our workshop if they can make the needed adjustments. Our optics is chosen to be a Raspberry Pi NoIR Camera and we are using the OpenCV package to do the detection work.
		We met on Tuesday with the whole team.


Lab Week 11: June 27 - July 3		Metabolic burden Promoter test (J23109, J23101 and J23115): pSB3K3‑BBa_E0240 was cut with the restriction enzymesXbaI and PstI. J61002 with the promoter J23109, J23101 or J23115 was each cut with SpeI and PstI and then ligated with the cut BBa_E0240 construct. The ligation product was transformed into E. coli Top 10 via heatshock transformation. The strength of the three promoters was then compared by observing the fluorescence of the GFP.
		Robotics The ordered materials arrived and we started assembling the chassis. We talked to the workshop and they prepare some of the parts for us. One of our team members is preparing the OpenCV software and getting familiar with the camera
		We met on Tuesday with the whole team.


Lab Week 12: July 4 - July 10		Hier könnte Ihr labjournal stehen!
		Robotics We have some problems assembling the chassis. Some parts need to be adapted. We like to have as much active measuring area as possible. The first 3D printed parts for the syringe pump are ready and we need to redesign some parts. The optics require IR light from underneath. Next week we are discussing the details of the construction
		We met on Tuesday with the whole team.


Lab Week 13: July 11 - July 17		Hier könnte Ihr labjournal stehen!
		Robotics We will build a lightbox wit IR LEDs. To assure a homogeneous IR light we will use a diffuser plate illuminated from the sides. One team member prepares the technical drawing.
		A guest from Milan arrives to get an impression of how iGEM works and help out in our lab - her name is Laura. She wants to introduce iGEM to her university as well and build a team there.


Lab Week 14: July 18 - July 24		miniColicin The BBa_K1976050 was made by performing a PCR on a product synthesized by IDT, using the primers M_RBS_DNAse_FW and suffix right. Following that another PCR was performed using prefix right and suffix right and digesting it using EcoRI and PstI. Following that it was ligated into the backbone pSB1C3 which was digested the same way and dephosphorylated, using our standard protocol for the antarctic phosphatase. Following that using the standard T4 protocol, these fragments were ligated together. E. coli Top10 were then transformed with the ligated plasmid. Following that a colony PCR was performed to check for the proper band height.
		Robotics We are working on the chassis, the syringe pump and the optics. We have first object detections from the camera and the main parts of the chassis are assembled.
		Laura stays for another week.


Lab Week 15: July 25 - July 31		miniColicin The BBa_K1976051 was made by performing a PCR on a product synthesized by IDT, using the primers M_RBS_DNAse_FW and suffix right. Following that another PCR was performed using prefix right and suffix right and digesting it using EcoRI and PstI. Following that it was ligated into the backbone pSB1C3 which was digested the same way and dephosphorylated, using our standard protocol for the antarctic phosphatase. Following that using the standard T4 protocol, these fragments were ligated together. E. coli Top10 were then transformed with the ligated plasmid. Following that a colony PCR was performed to check for the proper band height.
		We discussed some problems and continued to work on the robot.
		We met on Tuesday with the whole team.


Lab Week 16: August 1 - August 7		Hier könnte Ihr labjournal stehen!
		Robotics We are waiting for the workshop to finish parts for the lightbox and the z-axis. We are working on the detection of rectangles and getting familiar with the Marlin software
		Our team went to the annual iGEM Germany Meet-Up in Marburg and exchanged ideas with the other german teams.


Lab Week 17: August 8 - August 14		Reporter System BBa_K1976002: The mVenus-LVA-gene was synthesized by idt and amplified through PCR using the SP-amplify-fw-Rep1 (fw) and SP-amplify-rev-Rep2 (REV) oligonucleotides.
		Robotics We are playing with the stepper motors and waiting for some final parts for the x-y-axis.
		The project coordination team planned a Pokémon-Style event for team bonding and we played some games and had great fun!


Lab Week 18: August 15 - August 21		Reporter System BBa_K1976002: The PCR product was verified by agarose gel electrophoresis and subsequently purified. The mVenus amplicon was cut with EcoRI and PstI and ligated into a pSB1C3 vector using T4-ligase.
		Robotics x-y-axis is mounted but we still need to adjust everything so it is moving smoothly The z-axis need a holdering made out of aluminum blocks we have to order. In that time we are working on the GUI and the Qt software
		We met on Tuesday with the whole team.


Lab Week 19: August 22 - August 28		Reporter System BBa_K1976002: The ligation product was transformed into E.coli Top 10 by heat shock transformation and the cells were spread out on a Chloramphenicol agar plate.
		We assembled some parts of the robot and spend some time getting used to the programs we use.
		We met on Tuesday with the whole team.


Lab Week 20: August 29 - September 4		Reporter System BBa_K1976002: Clones were screened with colony PCR using VF2 and VR oligonucleotides. Plasmid DNA was isolated from positive clones. Metabolic burden BBa_K1976001: The BioBrick BBa_I11020 was synthezised with a LVA‑tag and with B0034 as a ribosome binding site by IDT.
		We mostly spend our time on the computer.
		We met on Tuesday with the whole team.


Lab Week 21: September 5 - September 11		Reporter System BBa_K1976002: Isolated Plasmid DNA Sequence was verified by Sanger sequencing. Metabolic burden BBa_K1976001: The LVA‑tag was deleted by PCR with the primer Del_LVA_fw and Del_LVA_rev.
		Robotics Mounted the z-axis and tuned the x-y axis. The optical software is nearly ready to use and we like to test it next week. We started connecting the electronics to an ATX power supply. The Raspberry Pi is set up and ready to use. We still have some problems with the wireless connection.
		Our team team visited Evonik and was granted the opportunity to see how they work.


Lab Week 22: September 12 - September 18		Reporter System BBa_K1976003: The mVenus-LVA-pSB1C3 plasmid was cut with EcoRI and PstI and ligated into a T7-RBS-pSB1A3 plasmid which was cut with SpeI and PstI. Metabolic burden BBa_K1976000: The BioBrick BBa_E0240 was cut with the restriction enzymes XbaI and PstI. BBa_J61002 was cut with SpeI and PstI. The two restriction products were ligated by standard T4‑Ligation protocol. BBa_K1976001: B0034‑BBa_I11020 was cut with XbaI and PstI. BBa_J23101 was cut with SpeI and PstI. Both fragments were ligated using the T4‑Ligase by standard protocol.
		Robotics We installed the LEDs, relays and drivers for the LEDs. Sometimes they are not working properly but it seems to be a problem of the software, one is focusing on that task. x-y-Axis and z-axis movement works. We are installing the endstops to assure the steppers motors are stopping at the end of the movement.
		We met on Tuesday with the whole team.


Lab Week 23: September 19 - September 25		Reporter System BBa_K1976003: The ligation product was transformed into E.coli Top 10 by heat shock transformation and the cells were spread out on a Ampicillin agar plate. Metabolic burden BBa_K1976000: After plasmid preparation, the plasmid was cut with XbaI and PstI. We had the attp‑site BBa_11023 flanked by the two additional bidirectional transcription terminators BBa_1001 synthesized by IDT. The attp‑site of BBa_11023 was not the original λ‑attp‑site. Instead the sequence corresponded to the attP2‑site used in the Gateway ® cloning system. The construct was cut with EcoRI and SpeI. The pSB1C3 backbone was cut with EcoRI and PstI. Together with the previously cut BBa_J61002‑BBa_E0240 construct the synthesized BBa_1001‑BBa_11023‑BBa_1001 construct was ligated in the cut pSB1C3. BBa_K1976001: The ligation product was transformed into E. coli Top 10 via heatshock.
		Robotics The GUI is in principle ready to use. Our RAMPS board is maybe broken and we buy another one. The syringe pump was tested and it works like expected.
		We met on Tuesday with the whole team.


Lab Week 24: September 26 - October 2		Reporter System BBa_K1976003: Clones were screened with colony PCR using VF2 and VR oligonucleotides. Plasmid DNA was isolated from positive clones . miniColicin BBa_K1976054 was made by digesting Bba_K1976048 with Xba1 and Pst1. Also BBa_K525998 was digested with EcoRI and PstI. Both were ligated into pSB1A3. The ligation Top10 E. coli were then transformed with this construct. A colony PCR was performed to check for the right band height. Lastly the construct was digested with EcoRI and PstI and ligated in pSB1C3, which was digested the same way. Metabolic burden BBa_K1976000: The attP2‑site was mutated to λ‑attp via Quick‑Change‑PCR, using the following primers: QC_attp_fw and QC_attp_rev (for more details see our primerlist). BBa_K1976001: To check whether BBa_I11020 was expressed properly a SDS‑Page was made.
		Robotics Munich sent us their syringe pump. We are now printing the additional parts and like to test it. Still working on the electronics and one LED strip needs to be soldered again. We installed our lightbox and we can clearly see the objects and have target vectors which we are using for our auto tracking later
		We met on Tuesday with the whole team.


Lab Week 25: October 3 - October 9		Reporter System BBa_K1976003: The isolated Plasmid DNA was verified by Sanger sequencing. miniColicin BBa_K1976055 was made by digesting Bba_K1976049 with Xba1 and Pst1. Also BBa_K525998 was digested with EcoRI and PstI. Both were ligated into pSB1A3. The ligation Top10 E. coli were then transformed with this construct. A colony PCR was performed to check for the right band height. Lastly the construct was digested with EcoRI and PstI and ligated in pSB1C3, which was digested the same way. Metabolic burden BBa_K1976000: The LVA‑tag was added by PCR with the overhang primer LVA_GFP_fw and LVA_GFP_rev.
		Robotics We assembled the Munich syringe pump and tested it. It works good and we have new ideas for our system. We gave them feedback for their design. Our robot is working but we need to fix some bugs. Also we have to adjust some parameters.
		We met on Tuesday with the whole team.


Lab Week 26: October 10 - October 16		Reporter System BBa_K1976003: Subsequently the psB1A3 vector containing brick was cut with EcoRI and PstI and ligated into a pSB1C3 vector using T4‑Ligase. miniColicin The BBa_K1976052 was made by performing a PCR on Bba_K1976050 using Prim-0.36-FW and suffix right and digesting it using EcoRI and XbaI. Also Bba_K1976029 was amplified by PCR using Prim-0.72-FW and suffix right. Following that both were ligated into the backbone pSB1C3 which was digested using EcoRI and PstI and dephosphorylated, using our standard protocol for the antarctic phosphatase. Following that using the standard T4 protocol, these fragments were ligated together. E. coli Top10 were then transformed with the ligated plasmid. Following that a colony PCR was performed to check for the proper band height. The BBa_K1976053 was made by performing a PCR on Bba_K1976050 using Prim-0.36-FW and suffix right and digesting it using EcoRI and XbaI. Also Bba_K1976029 was amplified by PCR using Prim-0.72-FW and suffix right. Following that both were ligated into the backbone pSB1C3 which was digested using EcoRI and PstI and dephosphorylated, using our standard protocol for the antarctic phosphatase. Following that using the standard T4 protocol, these fragments were ligated together. E. coli Top10 were then transformed with the ligated plasmid. Following that a colony PCR was performed to check for the proper band height. Metabolic burden BBa_K1976000: For plasmid curing the final plasmid construct and the low copy backbone pSB4A5 were cut with EcoRI and PstI and then ligated. BBa_K1976001: For plasmid curing the final plasmid construct and the low copy vector pSB4K5 were cut with EcoRI and PstI and then ligated. BBa_K1976000 and BBa_K1976001 were cotransformed into E. coli Top 10. To check whether the genomic integration was successful a cPCR with attb_fw and VR primers was made.
		Robotics We are testing the functionality of the robot. Unfortunately we still have no mVenus to work with, however we can do some test with our light detection. We encapsulated the robot and can control it via network. We are finalizing the robot.
		We met on Tuesday with the whole team.


Lab Week 27: October 17 - October 23		Metabolic burden Plasmid curing could not be performed due to lack of time.
		Robotics Time is running and we are working on the last details. We are exited for the Jamboree.
		We met on Tuesday with the whole team.

@@ Line 21: / Line 21: @@
 As well we would like to highlight certain social events&#x00A0;&#x00A0;<img src="https://static.igem.org/mediawiki/2016/c/ce/T--TU_Darmstadt--iconSocial.png" style="height:3rem"/>  which helped us to further improve our team spirit.</p>
 <p>Our iGEM year started with weekly team meetings on tuesdays in January. <br>On February 27 and  28 we officially iniated the project with our Kickoff-Event in which teams have been formed and weekly teamleader meetings were set.</p>
-<p>To teach the new members all the needed basics for working in the lab and genetic engineering in general, the advisors offered classes like a <b> snapgene workshop</b>  (March 4), how to use <b> scifinder</b> (March 12) and a <b>cloning strategies
+<p>To teach the new members all the needed basics for working in the lab and genetic engineering in general, the experienced students offered classes like a <b> snapgene workshop</b>  (March 4), how to use <b> scifinder</b> (March 12) and a <b>cloning strategies
 workshop</b> (March 17).</p>
 <table id="lab_table">
@@ Line 106: / Line 106: @@
 </td><td><img class="labjournalIcon" src="https://static.igem.org/mediawiki/2016/7/7c/T--TU_Darmstadt--iconTech.png"/></td>
 <td><p><h6>Robotics</h6>Made decision about the chassis, an Ultimaker2 clone. Pumping system will be a syringe pump from hackaday.io
-Two will look for the needed materials for the chassis, one the materials for the syringe pump and one will think about the detection system with an optic.</p></td></tr>
+Two will look for the needed materials for the chassis, one for the materials for the syringe pump and one will think about the detection with an optical detection system.</p></td></tr>
 <tr><td></td><td><img class="labjournalIcon" src="https://static.igem.org/mediawiki/2016/c/ce/T--TU_Darmstadt--iconSocial.png"/></td>
@@ Line 117: / Line 117: @@
 <div class="labWeek"><h5>Lab Week 7: <div class="week_date"> May 30 - June 5</div></h5></div></td>
 <td><img class="labjournalIcon" src="https://static.igem.org/mediawiki/2016/b/b5/T--TU_Darmstadt--iconLab3.png"/></td>
-<td><p>The  BBa_K1976049 was made by performing a PCR on a product synthesized by IDT, using the primers <i>prefix right</i> and <i>suffix right</i>and digesting it using <i>EcoRI</i> and <i>PstI</i>. Following that it was ligated into the backbone pSB1C3 which was digested the same way and dephosphorylated, using our standard protocol for the antarctic phosphatase. Following that using the standard T4 protocol, these fragments were ligated together. Lastly <i>E. Coli</i> Top10 have been transformed with the ligation</p>
+<td><p><h6>miniColicin</h6>The  brick BBa_K1976049 was created by performing  PCR on a product synthesized by IDT, using the primers <i>prefix right</i> and <i>suffix right</i> and digesting it using <i>EcoRI</i> and <i>PstI</i>. Following that it was ligated into the backbone pSB1C3 which was digested the same way and dephosphorylated, using our standard protocol for the antarctic phosphatase. Following that using the standard T4 protocol, these fragments were ligated together. Lastly <i>E. Coli</i> Top10 have been transformed with the ligation</p>
 </td></tr>
 <tr><td></td><td><img class="labjournalIcon" src="https://static.igem.org/mediawiki/2016/7/7c/T--TU_Darmstadt--iconTech.png"/></td>
-<td>robotics</td></tr>
+<td>We continued with the work from the last weeks</td></tr>
 <tr><td></td><td><img class="labjournalIcon" src="https://static.igem.org/mediawiki/2016/c/ce/T--TU_Darmstadt--iconSocial.png"/></td>
@@ Line 148: / Line 148: @@
 </td></tr>
 <tr><td></td><td><img class="labjournalIcon" src="https://static.igem.org/mediawiki/2016/7/7c/T--TU_Darmstadt--iconTech.png"/></td>
-<td>robotics</td></tr>
+<td>We continued with the work from the last weeks.</td></tr>
 <tr><td></td><td><img class="labjournalIcon" src="https://static.igem.org/mediawiki/2016/c/ce/T--TU_Darmstadt--iconSocial.png"/></td>
@@ Line 179: / Line 179: @@
 pSB3K3&#8209;BBa&#95;E0240 was cut with the restriction enzymes<i>XbaI</i> and <i>PstI</i>.<br>
 J61002 with the promoter J23109, J23101 or J23115 was each cut with <i>SpeI</i> and <i>PstI</i> and then ligated with the cut BBa&#95;E0240 construct. <br>
-The ligation product was transformed into <i>E.&nbsp;coli</i> Top&nbsp;10 via heatshock.<br>
+The ligation product was transformed into <i>E.&nbsp;coli</i> Top&nbsp;10 via heatshock transformation.<br>
 The strength of the three promoters was then compared by observing the fluorescence of the GFP.</p>
 </td></tr>
@@ Line 214: / Line 214: @@
 </td></tr>
 <tr><td></td><td><img class="labjournalIcon" src="https://static.igem.org/mediawiki/2016/7/7c/T--TU_Darmstadt--iconTech.png"/></td>
-<td><p>We will built a lightbox wit IR LEDs. To assure a homogeneous IR light we will use a diffuser plate illuminated from the sides.  One team member prepares the technical drawing.</p></td></tr>
+<td><p><h6>Robotics</h6>We will build a lightbox wit IR LEDs. To assure a homogeneous IR light we will use a diffuser plate illuminated from the sides.  One team member prepares the technical drawing.</p></td></tr>
 <tr><td></td><td><img class="labjournalIcon" src="https://static.igem.org/mediawiki/2016/c/ce/T--TU_Darmstadt--iconSocial.png"/></td>
@@ Line 229: / Line 229: @@
 <p>The  BBa_K1976050 was made by performing a PCR on a product synthesized by IDT, using the primers <i>M_RBS_DNAse_FW</i> and <i>suffix right</i>.
 Following that another PCR was performed using <i>prefix right</i> and <i>suffix right</i> and digesting it using EcoRI and PstI. Following that it was ligated into the backbone pSB1C3 which was digested the same way and dephosphorylated, using our standard protocol for the antarctic phosphatase. Following that using the standard T4 protocol, these fragments were ligated together.
-E. coli Top10 were then transformed with the ligated plasmid. Following that a colony PCR was performed to check for the proper band height.</p>
+<i>E. coli</i> Top10 were then transformed with the ligated plasmid. Following that a colony PCR was performed to check for the proper band height.</p>
 </td></tr>
@@ Line 250: / Line 250: @@
 <p>The  BBa_K1976051 was made by performing a PCR on a product synthesized by IDT, using the primers <i>M_RBS_DNAse_FW</i> and <i>suffix right</i>.
 Following that another PCR was performed using <i>prefix right</i> and <i>suffix right</i> and digesting it using EcoRI and PstI. Following that it was ligated into the backbone pSB1C3 which was digested the same way and dephosphorylated, using our standard protocol for the antarctic phosphatase. Following that using the standard T4 protocol, these fragments were ligated together.
-E. coli Top10 were then transformed with the ligated plasmid. Following that a colony PCR was performed to check for the proper band height.</p>
+<i>E. coli</i> Top10 were then transformed with the ligated plasmid. Following that a colony PCR was performed to check for the proper band height.</p>
 </td></tr>
 <tr><td></td><td><img class="labjournalIcon" src="https://static.igem.org/mediawiki/2016/7/7c/T--TU_Darmstadt--iconTech.png"/></td>
-<td>robotics</td></tr>
+<td>We discussed some problems and continued to work on the robot.</td></tr>
 <tr><td></td><td><img class="labjournalIcon" src="https://static.igem.org/mediawiki/2016/c/ce/T--TU_Darmstadt--iconSocial.png"/></td>
@@ Line 271: / Line 271: @@
 <tr><td></td><td><img class="labjournalIcon" src="https://static.igem.org/mediawiki/2016/c/ce/T--TU_Darmstadt--iconSocial.png"/></td>
-<td><p>Our team went to the annual iGEM Germany Meet-Up in Marburg and exchanged ideas with the other German teams.</p></td></tr>
+<td><p>Our team went to the annual iGEM Germany Meet-Up in Marburg and exchanged ideas with the other german teams.</p></td></tr>
 </table>
@@ Line 304: / Line 304: @@
 <tr><td></td><td><img class="labjournalIcon" src="https://static.igem.org/mediawiki/2016/7/7c/T--TU_Darmstadt--iconTech.png"/></td>
 <td><p><h6>Robotics</h6>x-y-axis is mounted but we still need to adjust everything so it is moving smoothly
-The z-axis need a holdering made out of aluminum blocks we have to order. In that time we working on the GUI and the Qt software</p></td></tr>
+The z-axis need a holdering made out of aluminum blocks we have to order. In that time we are working on the GUI and the Qt software</p></td></tr>
 <tr><td></td><td><img class="labjournalIcon" src="https://static.igem.org/mediawiki/2016/c/ce/T--TU_Darmstadt--iconSocial.png"/></td>
@@ Line 317: / Line 317: @@
 <td><p><h6>Reporter System</h6>
 <b>BBa&#95;K1976002:</b><br>
-The ligation product was transformed into E.coli Top 10 by heat shock transformation and the cells were spread out on a Chloramphenicol agar plate.</p>
+The ligation product was transformed into <i>E.coli</i> Top 10 by heat shock transformation and the cells were spread out on a Chloramphenicol agar plate.</p>
 </td></tr>
 <tr><td></td><td><img class="labjournalIcon" src="https://static.igem.org/mediawiki/2016/7/7c/T--TU_Darmstadt--iconTech.png"/></td>
-<td>robotics</td></tr>
+<td>We assembled some parts of the robot and spend some time getting used to the programs we use.</td></tr>
 <tr><td></td><td><img class="labjournalIcon" src="https://static.igem.org/mediawiki/2016/c/ce/T--TU_Darmstadt--iconSocial.png"/></td>
@@ Line 342: / Line 342: @@
 </td></tr>
 <tr><td></td><td><img class="labjournalIcon" src="https://static.igem.org/mediawiki/2016/7/7c/T--TU_Darmstadt--iconTech.png"/></td>
-<td>robotics</td></tr>
+<td>We mostly spend our time on the computer.</td></tr>
 <tr><td></td><td><img class="labjournalIcon" src="https://static.igem.org/mediawiki/2016/c/ce/T--TU_Darmstadt--iconSocial.png"/></td>
@@ Line 355: / Line 355: @@
 <td><p><h6>Reporter System</h6>
 <b>BBa&#95;K1976002:</b><br>
-Isolated Plasmid DNA Sequence was verified by Sanger Sequencing. <br>
+Isolated Plasmid DNA Sequence was verified by Sanger sequencing. <br>
 <h6>Metabolic burden</h6>
 <b>BBa&#95;K1976001:</b><br>
@@ Line 392: / Line 392: @@
 <tr><td></td><td><img class="labjournalIcon" src="https://static.igem.org/mediawiki/2016/7/7c/T--TU_Darmstadt--iconTech.png"/></td>
 <td><p><h6>Robotics</h6>We installed the LEDs, relays and drivers for the LEDs. Sometimes they are not working properly but it seems to be a problem of the software, one is focusing on that task.
-X-y-Axis and z-axis movement works. We are installing the endstops to assure the steppers motors are stopping at the end of the movement. </p></td></tr>
+x-y-Axis and z-axis movement works. We are installing the endstops to assure the steppers motors are stopping at the end of the movement. </p></td></tr>
 <tr><td></td><td><img class="labjournalIcon" src="https://static.igem.org/mediawiki/2016/c/ce/T--TU_Darmstadt--iconSocial.png"/></td>
@@ Line 419: / Line 419: @@
 </td></tr>
 <tr><td></td><td><img class="labjournalIcon" src="https://static.igem.org/mediawiki/2016/7/7c/T--TU_Darmstadt--iconTech.png"/></td>
-<td><p><h6>Robotics</h6>The GUI is on principle ready to use. Our RAMPS board is maybe broken and we buy another one. The syringe pump was tested and it works like expected. </p></td></tr>
+<td><p><h6>Robotics</h6>The GUI is in principle ready to use. Our RAMPS board is maybe broken and we buy another one. The syringe pump was tested and it works like expected. </p></td></tr>
 <tr><td></td><td><img class="labjournalIcon" src="https://static.igem.org/mediawiki/2016/c/ce/T--TU_Darmstadt--iconSocial.png"/></td>
@@ Line 494: / Line 494: @@
 <p>The  BBa_K1976052 was made by performing a PCR on  Bba_K1976050 using <i>Prim-0.36-FW</i> and <i>suffix right</i> and digesting it using <i>EcoRI</i> and <i>XbaI</i>.  Also Bba_K1976029 was amplified by PCR using <i>Prim-0.72-FW</i> and <i>suffix right</i>. Following that both were ligated into the backbone pSB1C3 which was digested using <i>EcoRI</i> and <i>PstI</i> and dephosphorylated, using our standard protocol for the antarctic phosphatase. Following that using the standard T4 protocol, these fragments were ligated together.<br>
-E. coli Top10 were then transformed with the ligated plasmid. Following that a colony PCR was performed to check for the proper band height.</p><br>
+<i>E. coli</i> Top10 were then transformed with the ligated plasmid. Following that a colony PCR was performed to check for the proper band height.</p><br>
 <br>
 <p>The  BBa_K1976053 was made by performing a PCR on  Bba_K1976050 using <i>Prim-0.36-FW</i> and <i>suffix right</i> and digesting it using <i>EcoRI</i> and <i>XbaI</i>.  Also Bba_K1976029 was amplified by PCR using <i>Prim-0.72-FW</i> and <i>suffix right</i>. Following that both were ligated into the backbone pSB1C3 which was digested using <i>EcoRI</i> and <i>PstI</i> and dephosphorylated, using our standard protocol for the antarctic phosphatase. Following that using the standard T4 protocol, these fragments were ligated together.<br>
@@ Line 513: / Line 513: @@
 <td><p><h6>Robotics</h6>We are testing the functionality of the robot. Unfortunately we still have no mVenus to work with, however we can do some test with our light detection.
 We encapsulated the robot and can control it via network.
-We are finalizing the robot</p></td></tr>
+We are finalizing the robot.</p></td></tr>
 <tr><td></td><td><img class="labjournalIcon" src="https://static.igem.org/mediawiki/2016/c/ce/T--TU_Darmstadt--iconSocial.png"/></td>

Difference between revisions of "Team:TU Darmstadt/Notebook"

Revision as of 00:58, 20 October 2016

NOTEBOOK

Labjournal 2016

Lab Week 1: April 18 - April 24

Robotics

Lab Week 2: April 25 - Mai 1

Robotics

Lab Week 3: May 2 - May 8

Robotics

Lab Week 4: May 9 - May 15

Robotics

Lab Week 5: May 16 - May 22

Robotics

Lab Week 6: May 23 - May 29

miniColicin

Robotics

Lab Week 7: May 30 - June 5

miniColicin

Lab Week 8: June 6 - June 12

Robotics

Lab Week 9: June 13 - June 19

Lab Week 10: June 20 - June 26

Robotics

Lab Week 11: June 27 - July 3

Metabolic burden

Robotics

Lab Week 12: July 4 - July 10

Robotics

Lab Week 13: July 11 - July 17

Robotics

Lab Week 14: July 18 - July 24

miniColicin

Robotics

Lab Week 15: July 25 - July 31

miniColicin

Lab Week 16: August 1 - August 7

Robotics

Lab Week 17: August 8 - August 14

Reporter System

Robotics

Lab Week 18: August 15 - August 21

Reporter System

Robotics

Lab Week 19: August 22 - August 28

Reporter System

Lab Week 20: August 29 - September 4

Reporter System

Metabolic burden

Lab Week 21: September 5 - September 11

Reporter System

Metabolic burden

Robotics

Lab Week 22: September 12 - September 18

Reporter System

Metabolic burden

Robotics

Lab Week 23: September 19 - September 25

Reporter System

Metabolic burden

Robotics

Lab Week 24: September 26 - October 2

Reporter System

miniColicin

Metabolic burden

Robotics

Lab Week 25: October 3 - October 9

Reporter System

miniColicin

Metabolic burden

Robotics

Lab Week 26: October 10 - October 16

Reporter System

miniColicin

Metabolic burden

Robotics

Lab Week 27: October 17 - October 23

Metabolic burden

Robotics

Lab Week 1:
April 18 - April 24

Lab Week 2:
April 25 - Mai 1

Lab Week 3:
May 2 - May 8

Lab Week 4:
May 9 - May 15

Lab Week 5:
May 16 - May 22

Lab Week 6:
May 23 - May 29

Lab Week 7:
May 30 - June 5

Lab Week 8:
June 6 - June 12

Lab Week 9:
June 13 - June 19

Lab Week 10:
June 20 - June 26

Lab Week 11:
June 27 - July 3

Lab Week 12:
July 4 - July 10

Lab Week 13:
July 11 - July 17

Lab Week 14:
July 18 - July 24

Lab Week 15:
July 25 - July 31

Lab Week 16:
August 1 - August 7

Lab Week 17:
August 8 - August 14

Lab Week 18:
August 15 - August 21

Lab Week 19:
August 22 - August 28

Lab Week 20:
August 29 - September 4

Lab Week 21:
September 5 - September 11

Lab Week 22:
September 12 - September 18

Lab Week 23:
September 19 - September 25

Lab Week 24:
September 26 - October 2

Lab Week 25:
October 3 - October 9

Lab Week 26:
October 10 - October 16

Lab Week 27:
October 17 - October 23