Difference between revisions of "Team:TUDelft/Notebook"

Revision as of 21:04, 1 October 2019

Sci-Phi 29

Home

Orthogonal Replication

Cloning

Testing of Plasmid

April

May

June

July

August

Goal:	Assembly all the different parts with MoClo
Protocols Used:	Nanodrop DNA quantification, Plasmid Isolation, MoClo, E.coli Heat Shock Transformation, KOD Extreme PCR, Colony Polymerase PCR (GoTaq), E. coli Glycerol Stock, DNA Gel Electrophoresis Sequencing
Plan:	For Orthogonal Replication, first, all the level 0's were constructed and then assembled in level 1 to make the following constructs: 0.1 T7 p - U RBS - DNAP - WT 0.5 T7 p - U RBS - DNAP - WT WT T7 p - U RBS - DNAP - WT 0.1 T7 p - U RBS - TP - WT 0.5 T7 p - U RBS - TP - WT WT T7 p - U RBS - TP - WT 0.1 T7 p - U RBS - p5 - WT 0.5 T7 p - U RBS - p5 - WT WT T7 p - U RBS - p5 - WT 0.1 T7 p - U RBS - p6 - WT 0.5 T7 p - U RBS - p6 - WT WT T7 p - U RBS - p6 - WT 0.1 T7 p - U RBS - GFP - WT 0.5 T7 p - U RBS - GFP - WT WT T7 p - U RBS - GFP - WT
Results:	All composite parts are confirmed by sequencing.

September

Goal:	Add characterization for the parts page and see if the different promoters strength are visible
Protocols Used:	PURE System, Protein Gel, Mass Spectrometry,
Plan:	The following constructs were added to the PURE system and then run on a protein gel: 0.1 T7 p - U RBS - DNAP - WT 0.5 T7 p - U RBS - DNAP - WT WT T7 p - U RBS - DNAP - WT 0.1 T7 p - U RBS - TP - WT 0.5 T7 p - U RBS - TP - WT WT T7 p - U RBS - TP - WT 0.1 T7 p - U RBS - p5 - WT 0.5 T7 p - U RBS - p5 - WT WT T7 p - U RBS - p5 - WT 0.1 T7 p - U RBS - p6 - WT 0.5 T7 p - U RBS - p6 - WT WT T7 p - U RBS - p6 - WT After this, a remainder of the sample was analyzed with Mass Spectrometry.
Results:	Add link

October

Predictable and Transferable Expression

Cloning

Testing of Plasmid

April

May

June

July

August

Goal:	Assembly all the different parts with MoClo
Protocols Used:	Nanodrop DNA quantification, Plasmid Isolation, MoClo, E.coli Heat Shock Transformation, Colony Polymerase PCR (GoTaq), E. coli Glycerol Stock, DNA Gel Electrophoresis Sequencing Xgal Stock
Plan:	For Predictable & Transferable Expression, first, all the level 0's were constructed and then assembled in level 1 to make the following constructs: 0.5 T7 p - SarJ + B0032 - TALEsp1 - WT T7 t T7 p - SarJ + B0032 - TALEsp1 - WT T7 t 0.5 T7 p - RiboJ + B0032 - Juniper GFP - WT T7 t T7_sp1 p - RiboJ + B0032 - Juniper GFP - WT T7 t T7 p - RiboJ + B0032 - Juniper GFP - WT T7 t 0.5 T7_sp1 p - RiboJ + B0032 - Juniper GFP - WT T7 t Pbhr - SarJ + B0032 - TALEsp1 - WT T7 t Pbhr - RiboJ + B0032 - Juniper GFP - WT T7 t 0.5 T7 p - SarJ + B0032 - TALEsp1 - WT T7 t T7 p - SarJ + B0032 - TALEsp1 - WT T7 t Pbhr - Sarj + B0032 - TALEsp1 - WT T7 t 0.5 T7 p - RiboJ + B0032 - GFP - WT T7 t 0.1 T7 p - RiboJ + B0032 - GFP - WT T7 t 19bp T7 p - RiboJ + B0032 - GFP - WT T7 t 19bp 0.5 T7 p - RiboJ + B0032 - GFP - WT T7 t 19bp 0.1 T7 p - RiboJ + B0032 - GFP - WT T7 t T7sp_sp1 p - RiboJ + B0032 - GFP - WT T7 t Pbhr_sp1 - RiboJ + Universal RBS - GFP - WT T7 t T7 p - SarJ + Universal RBS - GFP - WT T7 t After assembling the level 1's, the following level M's were assembled: T7p TALEsp1 - Dummy 2 - Dummy 3 - T7p TALEsp1 T7p TALEsp1 - Dummy 2 - Dummy 3 - T7p GFP 0.5 T7p TALEsp1 - Dummy 2 - Dummy 3 - 0.5 T7_sp1 p GFP 0.5 T7p TALEsp1 - Dummy 2 - Dummy 3 - 0.5 T7p GFP 0.5 T7p TALEsp1 - Dummy 2 - Dummy 3 - T7_sp1 p GFP T7p TALEsp1 - Dummy 2 - Dummy 3 - 0.5 T7_sp1 p GFP T7p TALEsp1 - T7p TALEsp1 T7p TALEsp1 - T7p GFP 0.5 T7p TALEsp1 - 0.5 T7_sp1 p GFP T7p Universal RBS TALEsp1 - T7_sp1 p Universal RBS GFP Pbhr Universal RBS TALEsp1 - Pbhr_sp1 Universal RBS GFP Pbhr Universal RBS TALEsp1 - Pbhr_sp1 v2 Universal RBS GFP Pbhr Universal RBS TALEsp1 - Pbhr Universal RBS GFP Pbhr SarJ B00032 TALEsp1 - Pbhr Universal GFP
Results:	To be added

September

October

@@ Line 670: / Line 670: @@
              </tr>
          </table>
+        <br><br>
    <h2>Predictable and Transferable Expression</h2>
+        <br>
              <table id="tabletu" class="notebook">
                  <tr id="category">
@@ Line 924: / Line 926: @@
      <script>
-        // Get the button that opens the modal
+      var btn = document.querySelectorAll("button.modal-button");
-        var btn = document.querySelectorAll("button.modal-button");
+var modalTD = document.querySelectorAll(".modalTD") // get modalTD
-        // All page modals
-        var modals = document.querySelectorAll('.modal');
-        // Get the <span> element that closes the modal
+var modals = document.querySelectorAll('.modal');
-        var spans = document.getElementsByClassName("close");
-        // When the user clicks the button, open the modal
+// Get the <span> element that closes the modal
-        for (var i = 0; i < btn.length; i++) {
+var spans = document.getElementsByClassName("close");
-            btn[i].onclick = function(e) {
-                e.preventDefault();
-                modal = document.querySelector(e.target.getAttribute("href"));
-                modal.style.display = "block";
-            }
-        }
-        // When the user clicks on <span> (x), close the modal
+// When the user clicks the button, open the modal
-        for (var i = 0; i < spans.length; i++) {
+for (var i = 0; i < btn.length; i++) {
-            spans[i].onclick = function() {
+  btn[i].style.height = modalTD[i].clientHeight + 'px' //set height of outer td to buttons
-                for (var index in modals) {
+  btn[i].onclick = function(e) {
-                    if (typeof modals[index].style !== 'undefined') modals[index].style.display = "none";
+    e.preventDefault();
-                }
+    modal = document.querySelector(e.target.getAttribute("href"));
-            }
+    modal.style.display = "block";
-        }
+  }
+}
-        // When the user clicks anywhere outside of the modal, close it
+// When the user clicks on <span> (x), close the modal
-        window.onclick = function(event) {
+for (var i = 0; i < spans.length; i++) {
-            if (event.target.classList.contains('modal')) {
+  spans[i].onclick = function() {
-                for (var index in modals) {
+    for (var index in modals) {
-                    if (typeof modals[index].style !== 'undefined') modals[index].style.display = "none";
+      if (typeof modals[index].style !== 'undefined') modals[index].style.display = "none";
-                }
+    }
-            }
+  }
-        }
+}
+// When the user clicks anywhere outside of the modal, close it
+window.onclick = function(event) {
+  if (event.target.classList.contains('modal')) {
+    for (var index in modals) {
+      if (typeof modals[index].style !== 'undefined') modals[index].style.display = "none";
+    }
+  }
+}
      </script>

Difference between revisions of "Team:TUDelft/Notebook"

Revision as of 21:04, 1 October 2019

Orthogonal Replication

Gibson Assembly of Gene of Interest Plasmid

Gibson Assembly of Support Plasmid

Brute Force Experiments 1

MoClo Assembly

Toxicity Experiments 1

Toxicity Experiments 2

Characterization of Level 1's

Brute Force Experiments 2

Orthogonal Replication

Predictable and Transferable Expression

Uber Plasmid

MoClo Assembly

Copy Number Independence

Transcriptional Variance Independence

Translation Variance Independence