Noi/NOTES/2014-6-3: Difference between revisions

From ZhangLabWiki
Jump to navigation Jump to search
>Noi
>Noi
mNo edit summary
 
Line 2: Line 2:
'''Link to calendar: [[http://genome-tech.ucsd.edu/LabNotes/index.php/noi:DMR220k_LabNotes#2014]]'''
'''Link to calendar: [[http://genome-tech.ucsd.edu/LabNotes/index.php/noi:DMR220k_LabNotes#2014]]'''
* Experimental procedur ewill be added
* Experimental procedur ewill be added
===== PAGE verification =====
==== PAGE Quantification ====
* Loaded 4ul of 1X bead-purified sequencing libraries (total 60ul) in 12% TBE gel
* Loaded 4ul of 1X bead-purified sequencing libraries (total 60ul) in 12% TBE gel
  [[File:ZhangLab_2 2014-06-06 08hr 41min_PQ_5ng-CTT-RRBS_4ul.jpg|350px]]
  [[File:ZhangLab_2 2014-06-06 08hr 41min_PQ_5ng-CTT-RRBS_4ul.jpg|350px]]
===== PAGE size selection =====
{| {{table}} class = wikitable
| align="center" style="width:140px;background:#f0f0f0;"|'''Sample'''
| align="center" style="width:80px;background:#f0f0f0;"|'''TruSeq Index'''
| align="center" style="width:80px;background:#f0f0f0;"|'''Conc. (ng/ul)'''
| align="center" style="width:80px;background:#f0f0f0;"|'''Yield in 60ul (ng)'''
| align="center" style="width:80px;background:#f0f0f0;"|'''Amount for 150ng (ul)'''
|-
| CTT-frozen 5ng_1||Ind_9||6.66||399.60||22.52
|-
| CTT-frozen 5ng_2||Ind_10||15.04||902.62||9.97
|-
| CTT-FFPE 5ng_1||Ind_11||9.60||575.94||15.63
|-
| CTT-FFPE 5ng_2||Ind_13||15.09||905.13||9.94
|}
==== PAGE size selection ====
* Performed PAGE size selection in 3 wells of 5-well 12% TBE gel
* Performed PAGE size selection in 3 wells of 5-well 12% TBE gel
  [[File:ZhangLab_2 2014-06-06 10hr 08min_5ng-CTT-RRBS_PAGE-SS.jpg| 400px]]
  [[File:ZhangLab_2 2014-06-06 10hr 08min_5ng-CTT-RRBS_PAGE-SS.jpg| 400px]]

Latest revision as of 19:14, 18 June 2014

RRBS, tumor tissue sample (colon)[edit]

Link to calendar: [[1]]

  • Experimental procedur ewill be added

PAGE Quantification[edit]

  • Loaded 4ul of 1X bead-purified sequencing libraries (total 60ul) in 12% TBE gel
File:ZhangLab 2 2014-06-06 08hr 41min PQ 5ng-CTT-RRBS 4ul.jpg
Sample TruSeq Index Conc. (ng/ul) Yield in 60ul (ng) Amount for 150ng (ul)
CTT-frozen 5ng_1 Ind_9 6.66 399.60 22.52
CTT-frozen 5ng_2 Ind_10 15.04 902.62 9.97
CTT-FFPE 5ng_1 Ind_11 9.60 575.94 15.63
CTT-FFPE 5ng_2 Ind_13 15.09 905.13 9.94

PAGE size selection[edit]

  • Performed PAGE size selection in 3 wells of 5-well 12% TBE gel
File:ZhangLab 2 2014-06-06 10hr 08min 5ng-CTT-RRBS PAGE-SS.jpg
  • Verified 2ul of size-selected libraries in 6% TBE gel
File:ZhangLab 2 2014-06-07 22hr 50min PAGE-verify NP-RRBS-CTT-5ng.jpg

Sequencing library ID: NP-RRBS-CTT-5ng, Jun3, 2014

- Length: 160-360bp
- Index: Truseq Ind9-11, 13