Dinh:LAB/Bisulfite Sequencing

From ZhangLabWiki
Revision as of 23:37, 26 February 2010 by >Dinh
Jump to navigation Jump to search

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: NEBNext(TM) DNA Sample Prep Master Mix Set 1 Dinh:LAB/LibraryConstructionProtocol

Data Analysis

Harvard PD Data

Feb 26 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>