Dinh:LAB/Bisulfite Sequencing: Difference between revisions

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=Library Contruction=
=Library Contruction=
General protocol [[Dinh:LAB/LibraryConstructionProtocol]]
==NEBNext(TM) DNA Sample Prep Master Mix Set 1==
==NEBNext(TM) DNA Sample Prep Master Mix Set 1==
Preparation of Breast Cancer Patient Samples (no. 10-15) [http://genome-tech.ucsd.edu/LabNotes/index.php/Dinh/NOTES/2010-2-1 Feb 1 2010]
Preparation of Breast Cancer Patient Samples (no. 10-15) [http://genome-tech.ucsd.edu/LabNotes/index.php/Dinh/NOTES/2010-2-1 Feb 1 2010]

Revision as of 18:45, 10 February 2010

Probes Preparation

CpG30K

CpG97K

| Jan 24 2009 CpG97K B, 65ulx 15ng/ul

DNA Extraction

Bisulfite Conversion and Capturing

  • Improving capturing efficiency of CpG30K set for pipelining, Jan 4 2010 Capture Reaction (2pm), Jan 7 2010 Results.

Breast Cancer Patients, Diet and Methylation Study

  • Capturing Breast Cancer Patients (samples 1-9), Dec 9 2009 Capture Reaction, Dec 15 2009 E-Gel Size selection, Amplification with iProof
Breast Cancer Patients (1-28) Samples Track, Dinh:Breast_Cancer_Methylation
  • Capturing Test, CpG97A/B. Templates: bis_Jurkat, bis_16. Conditions: 55C vs 60C, 0 Cycling. Jan 10 2010
  • Capture, CpG97A/B. Templates: bis_10-14, bis_Jurkat. Condition: 55C, 0 Cycling. Jan 15 2010
  • Capture Re-test for Sanger Sequencing, CpG97A/B. Template: bis_15. Condition: 55C vs 60C, 0 Cycling. Jan 21 2010
  • Capture PCR Reaction with AmpF/R6.3NH2, CpG97K A/B. Template: 10-15. Jan 25 2010, size selection Jan 26 2010, Re-Amplification Jan 27 2010, Samples sent to Illumina for Covaris shearing (all 100bp fragments) Jan 29 2010.

Library Contruction

General protocol Dinh:LAB/LibraryConstructionProtocol

NEBNext(TM) DNA Sample Prep Master Mix Set 1

Preparation of Breast Cancer Patient Samples (no. 10-15) Feb 1 2010

Notebook

<calendar> name=Dinh format=%name/NOTES/%year-%month-%day date=2010/07/01 view=oneyear </calendar>

<calendar> name=Dinh format=%name/NOTES/%year-%month-%day date=2009/07/01 view=oneyear </calendar>