Difference between revisions of "Talk:20.109(F13): Mod 1 Day 5 Examine candidate clones & tissue culture"

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====Digest Results====
 
====Digest Results====
  
Note: most of these gels were run using loading dye without RNase. In Agi's misguided attempt to keep your methods section simple, she made the call to stick with the NEB loading dye instead of our home-brew loading dye -- sorry, all! Most of the gels seem straightforward to interpret: just ignore the very thick small bands of RNA, and note that your other DNA bands may be shifted down very slightly and are also curved. However, in a couple of cases we may re-run digests/gels, and will keep you posted about it. Feel free to provide feedback about how "interpretable" you think your gel is directly to us.
+
Note: most of these gels were run using loading dye without RNase (except for team Platinum). In our misguided attempt to keep your methods section simple, we made the call to stick with the NEB loading dye instead of our home-brew loading dye -- sorry, all! Most of the gels seem straightforward to interpret: just ignore the very thick small bands of RNA, and note that your other DNA bands may be shifted down slightly and are also curved. For example, in several images the uncut plasmid band is shifted to below the 3kbp MW marker. However, in a couple of cases we may re-run digests/gels, and will keep you posted about it. For the teams with unknown enzymes and/or samples (Green, Blue, and Pink), please modify this page and fill in these details. Feel free to provide feedback about how "interpretable" you think your gel is directly to us.
  
 
{| align="center" border="1"
 
{| align="center" border="1"
 
|-
 
|-
|Red
+
|Red(left to right): Uncut, XhoI, BamHI-HF, X+B; Lanes: 1,2,3,4 – C2; 5,6,8,9 – pCX-NNX; 10,11,12,13 – C3; 7, 14: 1kb marker
|Orange
+
|Orange(left to right): Uncut, XhoI, BamHI-HF, X+B; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C1; 10,11,12,13 – C2; 7, 14: 1kb marker
|Yellow
+
|Yellow(left to right): Uncut, XhoI, BamHI-HF, X+B; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C1; 10,11,12,13 – C2; 7, 14: 1kb marker
|Green  
+
|Green(left to right): Uncut, E1, E2, E1+E2; Lanes: 1,2,3,4 – sample 1; 5,6,8,9 – sample 2; 10,11,12,13 – sample 3; 7, 14: 1kb marker
|Blue
+
|Blue(left to right): Uncut, XhoI, BamHI-HF, X+B; Lanes: 1,2,3,4 – sample 2; 5,6,8,9 – sample 3; 10,11,12,13 – pCX-NNX; 7, 14: 1kb marker
 
|-
 
|-
 
|[[Image:Red M1D5 F13.BMP|175px]]
 
|[[Image:Red M1D5 F13.BMP|175px]]
Line 18: Line 18:
 
|[[Image:Blue M1D5 F13.BMP|175px]]
 
|[[Image:Blue M1D5 F13.BMP|175px]]
 
|-
 
|-
|Pink
+
|Pink(left to right): Uncut, ,BamH1, Xho1, BamH1+Xho1; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C1; 10,11,12,13 – C2; 7, 14: 1kb marker
|Purple
+
|Purple(left to right): Uncut, XhoI, BamHI-HF, X+B; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C1; 10,11,12,13 – C2; 7, 14: 1kb marker
|Silver
+
|Platinum(left to right): Uncut, PvuI, EcoRV, P+E; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C1; 10,11,12,13 – C3; 7, 14: 1kb marker
|White
+
|White(left to right): Uncut, XhoI, BamHI-HF, X+B; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C2; 10,11,12,13 – C3; 7, 14: 1kb marker
 
|
 
|
 
|-
 
|-
Line 33: Line 33:
 
===W/F lab===
 
===W/F lab===
 
====Digest Results====
 
====Digest Results====
 +
Note: Blue and White teams please edit the details for your enzymes :)
 +
 +
{| align="center" border="1"
 +
|-
 +
|Red(left to right): Uncut, EcoRI, NotI, E+N; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C1; 10,11,12,13 – C2; 7, 14: 1kb marker
 +
|Orange(left to right): Uncut, XbaI, XhoI, X+X; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C1; 10,11,12,13 – C3; 7, 14: 1kb marker
 +
|Yellow(left to right): Uncut, SalI, EcoRV, S+E; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C1; 10,11,12,13 – C2; 7, 14: 1kb marker
 +
|Green(left to right): Uncut, SalI, EcoRV, S+E; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C1; 10,11,12,13 – C2; 7, 14: 1kb marker
 +
|
 +
|-
 +
|[[Image:Red M1D5 F13.jpeg|175px]]
 +
|[[Image:Orange M1D5 F13.jpeg|175px]]
 +
|[[Image:Yellow M1D5 F13.jpeg|175px]]
 +
|[[Image:Green M1D5 F13.jpeg|175px]]
 +
|
 +
|-
 +
|Blue(left to right): Uncut, BamHI-HF, NotI, B+N; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C2; 10,11,12,13 – C3; 7, 14: 1kb marker
 +
|Pink(left to right): Uncut, PvuI, BamHI-HF, P+B; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C1; 10,11,12,13 – C2; 7, 14: 1kb marker
 +
|Purple(left to right): Uncut, BamHI-HF, XhoI, B+X; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C1; 10,11,12,13 – C3; 7, 14: 1kb marker
 +
|White(left to right): Uncut, SalI, EcoRV, SalI+EcoRV; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C1; 10,11,12,13 – C3; 7, 14: 1kb marker
 +
|
 +
|-
 +
|[[Image:Blue M1D5 F13.jpeg|175px]]
 +
|[[Image:Pink M1D5 F13.jpeg|175px]]
 +
|[[Image:Purple M1D5 F13.jpeg|175px]]
 +
|[[Image:White M1D5 F13.jpeg|175px]]
 +
|
 +
|}
  
 
====Ligation Results====
 
====Ligation Results====
Line 55: Line 83:
 
| 100
 
| 100
 
|-
 
|-
|Pink
+
|Pink (W/F)
 
|896
 
|896
 
|3
 
|3
Line 62: Line 90:
 
|
 
|
 
|-
 
|-
|
+
|Red (W/F)
|
+
|1096
|
+
|0
|
+
|6
|
+
|67
|
+
|100
 
|-
 
|-
|
+
|Blue (W/F)
|
+
|1140
|
+
|1
|
+
|4
|
+
|231
|
+
|270
 
|-
 
|-
|
+
|Purple (W/F)
|
+
|860
|
+
|5
|
+
|4
|
+
|158
|
+
|133
 
|-
 
|-
|
+
|White (W/F)
|
+
|1380
|
+
|21
|
+
|25
|
+
|152
|
+
|98
 
|-
 
|-
|
+
|Yellow(W/F)
|
+
|950
|
+
|1
|
+
|2
|
+
|102
|
+
|127
 
|-
 
|-
|
+
|Green(W/F)
|
+
|944
|
+
|20
|
+
|29
|
+
|90
|
+
|132
 
|-
 
|-
 
|
 
|

Latest revision as of 08:26, 6 October 2013

T/R lab

Digest Results

Note: most of these gels were run using loading dye without RNase (except for team Platinum). In our misguided attempt to keep your methods section simple, we made the call to stick with the NEB loading dye instead of our home-brew loading dye -- sorry, all! Most of the gels seem straightforward to interpret: just ignore the very thick small bands of RNA, and note that your other DNA bands may be shifted down slightly and are also curved. For example, in several images the uncut plasmid band is shifted to below the 3kbp MW marker. However, in a couple of cases we may re-run digests/gels, and will keep you posted about it. For the teams with unknown enzymes and/or samples (Green, Blue, and Pink), please modify this page and fill in these details. Feel free to provide feedback about how "interpretable" you think your gel is directly to us.

Red(left to right): Uncut, XhoI, BamHI-HF, X+B; Lanes: 1,2,3,4 – C2; 5,6,8,9 – pCX-NNX; 10,11,12,13 – C3; 7, 14: 1kb marker Orange(left to right): Uncut, XhoI, BamHI-HF, X+B; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C1; 10,11,12,13 – C2; 7, 14: 1kb marker Yellow(left to right): Uncut, XhoI, BamHI-HF, X+B; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C1; 10,11,12,13 – C2; 7, 14: 1kb marker Green(left to right): Uncut, E1, E2, E1+E2; Lanes: 1,2,3,4 – sample 1; 5,6,8,9 – sample 2; 10,11,12,13 – sample 3; 7, 14: 1kb marker Blue(left to right): Uncut, XhoI, BamHI-HF, X+B; Lanes: 1,2,3,4 – sample 2; 5,6,8,9 – sample 3; 10,11,12,13 – pCX-NNX; 7, 14: 1kb marker
Red M1D5 F13.BMP Orange M1D5 F13.BMP Yellow M1D5 F13.BMP Green M1D5 F13.BMP Blue M1D5 F13.BMP
Pink(left to right): Uncut, ,BamH1, Xho1, BamH1+Xho1; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C1; 10,11,12,13 – C2; 7, 14: 1kb marker Purple(left to right): Uncut, XhoI, BamHI-HF, X+B; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C1; 10,11,12,13 – C2; 7, 14: 1kb marker Platinum(left to right): Uncut, PvuI, EcoRV, P+E; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C1; 10,11,12,13 – C3; 7, 14: 1kb marker White(left to right): Uncut, XhoI, BamHI-HF, X+B; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C2; 10,11,12,13 – C3; 7, 14: 1kb marker
Pink M1D5 F13.BMP Purple M1D5 F13.BMP Silver M1D5 F13.BMP White M1D5 F13.BMP

W/F lab

Digest Results

Note: Blue and White teams please edit the details for your enzymes :)

Red(left to right): Uncut, EcoRI, NotI, E+N; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C1; 10,11,12,13 – C2; 7, 14: 1kb marker Orange(left to right): Uncut, XbaI, XhoI, X+X; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C1; 10,11,12,13 – C3; 7, 14: 1kb marker Yellow(left to right): Uncut, SalI, EcoRV, S+E; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C1; 10,11,12,13 – C2; 7, 14: 1kb marker Green(left to right): Uncut, SalI, EcoRV, S+E; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C1; 10,11,12,13 – C2; 7, 14: 1kb marker
Red M1D5 F13.jpeg Orange M1D5 F13.jpeg Yellow M1D5 F13.jpeg Green M1D5 F13.jpeg
Blue(left to right): Uncut, BamHI-HF, NotI, B+N; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C2; 10,11,12,13 – C3; 7, 14: 1kb marker Pink(left to right): Uncut, PvuI, BamHI-HF, P+B; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C1; 10,11,12,13 – C2; 7, 14: 1kb marker Purple(left to right): Uncut, BamHI-HF, XhoI, B+X; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C1; 10,11,12,13 – C3; 7, 14: 1kb marker White(left to right): Uncut, SalI, EcoRV, SalI+EcoRV; Lanes: 1,2,3,4 – pCX-NNX; 5,6,8,9 – C1; 10,11,12,13 – C3; 7, 14: 1kb marker
Blue M1D5 F13.jpeg Pink M1D5 F13.jpeg Purple M1D5 F13.jpeg White M1D5 F13.jpeg

Ligation Results

Please put your colony count data in the correct row.

Note: "hypothetical data" just shows made-up numbers similar to what you might expect.

Group Colour pCX-EGFP (#) bkb + ins, no lig (#) bkb + lig, no ins (#) bkb + ins, lig 1 (#) bkb + ins, lig 2 (#)
Hypothetical Data 1000 2 20 100 100
Pink (W/F) 896 3 1 337
Red (W/F) 1096 0 6 67 100
Blue (W/F) 1140 1 4 231 270
Purple (W/F) 860 5 4 158 133
White (W/F) 1380 21 25 152 98
Yellow(W/F) 950 1 2 102 127
Green(W/F) 944 20 29 90 132