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>Alan6017518
(Created page with '==Quantify libraries with Phi-X ladder qPCR== ==AL-Exome-CViB-Jan14-AB w/ 1/10 dilution, AL-Exome-CViB-Jan14-CDE w/ 1/10 dilution, Ida's library== {| {{table}} | Setup|||||| |- |…')
 
>Alan6017518
 
Line 48: Line 48:
  [[Media:AL-Exome-CViB-Jan14-AB_2.pdf]]
  [[Media:AL-Exome-CViB-Jan14-AB_2.pdf]]
  [[Media:AL-Exome-CViB-Jan14-CDE_2.pdf]]
  [[Media:AL-Exome-CViB-Jan14-CDE_2.pdf]]
==JD-cpg97k+30k-Breast_cancer-01230B09-Jan15==
{| {{table}}
| ||Well / Set||C(t)||||Difference||nM
|-
| PhiX||A1||6.98||7.06||||
|-
| PhiX||B1||7.2||||||
|-
| PhiX||C1||7.16||||||
|-
| PhiX||D1||6.89||||||
|-
| JD-cpg97k+30k-Breast_cancer-01230B09-Jan15||E1||6.82||6.92||0.14||1.1
|-
| JD-cpg97k+30k-Breast_cancer-01230B09-Jan15||F1||7.09||||||
|-
| JD-cpg97k+30k-Breast_cancer-01230B09-Jan15||G1||6.89||||||
|-
| JD-cpg97k+30k-Breast_cancer-01230B09-Jan15||H1||6.86||||||
|-
|
|}
==AL-Exome-CViB-Jan14-AB==
{| {{table}}
| ||Well / Set||C(t)||Ave.||Difference||nM
|-
| ||||||||||
|-
| ||||||||||
|-
| PhiX||A1||7.99||8.11||||
|-
| PhiX||B1||8.33||||||
|-
| PhiX||C1||8.18||||||
|-
| PhiX||D1||7.95||||||
|-
| AL-Exome-CViB-Jan14-AB||B2||4.48||4.51||3.61||12.17
|-
| AL-Exome-CViB-Jan14-AB||C2||4.57||||||
|-
| AL-Exome-CViB-Jan14-AB||D2||4.47||||||
|-
|
|}
==1/10 AL-Exome-CViB-Jan14-AB==
{| {{table}}
| ||Well / Set||C(t)||Ave.||Difference||nM(X10DF.)
|-
| PhiX||A1||8.55||8.7||||
|-
| PhiX||B1||8.96||||||
|-
| PhiX||C1||8.74||||||
|-
| PhiX||D1||8.56||||||
|-
| 1/10 AL-Exome-CViB-Jan14-AB||G2||8.13||7.99||0.71||16.39
|-
| 1/10 AL-Exome-CViB-Jan14-AB||H2||7.85
|-
|
|}
==1/10 AL-Exome-CViB-Jan14-CDE==
{| {{table}}
| ||Well / Set||C(t)||Ave.||Difference||nM (X10DF.)
|-
| PhiX||A1||7.66||7.78||||
|-
| PhiX||B1||8||||||
|-
| PhiX||C1||7.86||||||
|-
| PhiX||D1||7.61||||||
|-
| 1/10 AL-Exome-CViB-Jan14-CDE||E3||6.57||6.68||1.1||21.44
|-
| 1/10 AL-Exome-CViB-Jan14-CDE||F3||6.69||||||
|-
| 1/10 AL-Exome-CViB-Jan14-CDE||G3||6.72||||||
|-
| 1/10 AL-Exome-CViB-Jan14-CDE||H3||6.75||||||
|-
|
|}
==AL-Exome-CViB-Jan14-CDE==
{| {{table}}
| ||Well / Set||C(t)||Ave.||Difference||nM
|-
| PhiX||A1||7.22||7.32||||
|-
| PhiX||B1||7.49||||||
|-
| PhiX||C1||7.41||||||
|-
| PhiX||D1||7.16||||||
|-
| AL-Exome-CViB-Jan14-CDE||A3||3.91||4.14||3.19||9.09
|-
| AL-Exome-CViB-Jan14-CDE||B3||4.14||||||
|-
| AL-Exome-CViB-Jan14-CDE||C3||4.25||||||
|-
| AL-Exome-CViB-Jan14-CDE||D3||4.24||||||
|-
|
|}
==Result==
{| {{table}}
| ||||nM
|-
| JD-cpg97k+30k-Breast_cancer-01230B09-Jan15||||1.1
|-
| 1/10 Ida||||
|-
| AL-Exome-CViB-Jan14-AB||||12.17
|-
| 1/10 AL-Exome-CViB-Jan14-AB||||16.39
|-
| ||||
|-
| AL-Exome-CViB-Jan14-CDE||||9.09
|-
| 1/10 AL-Exome-CViB-Jan14-CDE||||21.44
|-
|
|}

Latest revision as of 22:41, 21 January 2010

Quantify libraries with Phi-X ladder qPCR[edit]

AL-Exome-CViB-Jan14-AB w/ 1/10 dilution, AL-Exome-CViB-Jan14-CDE w/ 1/10 dilution, Ida's library[edit]

Setup
Stock Phi-X (1nM) AL-Exome-CViB-Jan14-AB AL-Exome-CViB-Jan14-CDE TEST
Stock Phi-X (1nM) AL-Exome-CViB-Jan14-AB AL-Exome-CViB-Jan14-CDE TEST
Stock Phi-X (1nM) AL-Exome-CViB-Jan14-AB AL-Exome-CViB-Jan14-CDE TEST
Stock Phi-X (1nM) AL-Exome-CViB-Jan14-AB AL-Exome-CViB-Jan14-CDE TEST
JD-cpg97k+30k-Breast_cancer-01230B09-Jan15 1/10 AL-Exome-CViB-Jan14-AB 1/10 AL-Exome-CViB-Jan14-CDE 1/10 TEST
JD-cpg97k+30k-Breast_cancer-01230B09-Jan15 1/10 AL-Exome-CViB-Jan14-AB 1/10 AL-Exome-CViB-Jan14-CDE 1/10 TEST
JD-cpg97k+30k-Breast_cancer-01230B09-Jan15 1/10 AL-Exome-CViB-Jan14-AB 1/10 AL-Exome-CViB-Jan14-CDE 1/10 TEST
JD-cpg97k+30k-Breast_cancer-01230B09-Jan15 1/10 AL-Exome-CViB-Jan14-AB 1/10 AL-Exome-CViB-Jan14-CDE 1/10 TEST
For 2 wells X17
DNA 2.000
Syb_FP5 (100uM) 0.200 3.400
Syb_RP7 (100uM) 0.200 3.400
2X Phusion 25.000 425.000
50X SYBR Green I 0.200 3.400
H20 24.000 408.000
   * Dilute sample, 1ul in 9ul ddh2o
   * mix 2ul 1/10 sample with 98ul mix in non-stick tube
   * aliquot 24ul to each well, for each sample use the same tip for every well (Pipet slowly!)

98C 30 sec -> 20 cycles of (98C 10sec->64C 20sec->72C 20sec)->72C 5 min

Media:JD-cpg97k+30k-Breast_cancer-01230B09-Jan15_log_2.pdf
Media:AL-Exome-CViB-Jan14-AB_2.pdf
Media:AL-Exome-CViB-Jan14-CDE_2.pdf

JD-cpg97k+30k-Breast_cancer-01230B09-Jan15[edit]

Well / Set C(t) Difference nM
PhiX A1 6.98 7.06
PhiX B1 7.2
PhiX C1 7.16
PhiX D1 6.89
JD-cpg97k+30k-Breast_cancer-01230B09-Jan15 E1 6.82 6.92 0.14 1.1
JD-cpg97k+30k-Breast_cancer-01230B09-Jan15 F1 7.09
JD-cpg97k+30k-Breast_cancer-01230B09-Jan15 G1 6.89
JD-cpg97k+30k-Breast_cancer-01230B09-Jan15 H1 6.86

AL-Exome-CViB-Jan14-AB[edit]

Well / Set C(t) Ave. Difference nM
PhiX A1 7.99 8.11
PhiX B1 8.33
PhiX C1 8.18
PhiX D1 7.95
AL-Exome-CViB-Jan14-AB B2 4.48 4.51 3.61 12.17
AL-Exome-CViB-Jan14-AB C2 4.57
AL-Exome-CViB-Jan14-AB D2 4.47

1/10 AL-Exome-CViB-Jan14-AB[edit]

Well / Set C(t) Ave. Difference nM(X10DF.)
PhiX A1 8.55 8.7
PhiX B1 8.96
PhiX C1 8.74
PhiX D1 8.56
1/10 AL-Exome-CViB-Jan14-AB G2 8.13 7.99 0.71 16.39
1/10 AL-Exome-CViB-Jan14-AB H2 7.85

1/10 AL-Exome-CViB-Jan14-CDE[edit]

Well / Set C(t) Ave. Difference nM (X10DF.)
PhiX A1 7.66 7.78
PhiX B1 8
PhiX C1 7.86
PhiX D1 7.61
1/10 AL-Exome-CViB-Jan14-CDE E3 6.57 6.68 1.1 21.44
1/10 AL-Exome-CViB-Jan14-CDE F3 6.69
1/10 AL-Exome-CViB-Jan14-CDE G3 6.72
1/10 AL-Exome-CViB-Jan14-CDE H3 6.75

AL-Exome-CViB-Jan14-CDE[edit]

Well / Set C(t) Ave. Difference nM
PhiX A1 7.22 7.32
PhiX B1 7.49
PhiX C1 7.41
PhiX D1 7.16
AL-Exome-CViB-Jan14-CDE A3 3.91 4.14 3.19 9.09
AL-Exome-CViB-Jan14-CDE B3 4.14
AL-Exome-CViB-Jan14-CDE C3 4.25
AL-Exome-CViB-Jan14-CDE D3 4.24

Result[edit]

nM
JD-cpg97k+30k-Breast_cancer-01230B09-Jan15 1.1
1/10 Ida
AL-Exome-CViB-Jan14-AB 12.17
1/10 AL-Exome-CViB-Jan14-AB 16.39
AL-Exome-CViB-Jan14-CDE 9.09
1/10 AL-Exome-CViB-Jan14-CDE 21.44