Noi/NOTES/2013-5-30: Difference between revisions

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>Noi
(Created page with "= DNA methylation assay for Blueprint project = * 2013-05-30: Received oligos from CustomArray * '''Oligo information''' ** Design: BSPP_Design-5-17-2013 --> I would name BSPP...")
 
>Noi
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** Volume 80ul in TE buffer. Total amount 3.21ug.
** Volume 80ul in TE buffer. Total amount 3.21ug.
* Probe prep plan
* Probe prep plan
** Last time of Matt's experiment on Expansion PCR of oligo from CustomArray, we need to used template ~100x more than probe synthesize from Agilent. This time I will test for expansion PCR using different amount of oligo template.
** Last time of Matt's experiment on Expansion PCR of oligo from CustomArray, we need to used template ~100x more than probe synthesize from Agilent. This time I will test for expansion PCR using different amount of oligo template (concentration in expansion PCR 20nM and 100nM) and use Matt' oligos from Agilent as PC.
** Aliquot 20ul oligo from original tube and dilute to 500nM (add 12.45ul to 20ul of 811.3nM oligo)
** Aliquot 20ul oligo from original tube and dilute to 500nM (add 12.45ul to 20ul of 811.3nM oligo)

Revision as of 18:49, 30 May 2013

DNA methylation assay for Blueprint project

  • 2013-05-30: Received oligos from CustomArray
  • Oligo information
    • Design: BSPP_Design-5-17-2013 --> I would name BSPP_Blueprint for future experiment
    • Length 150 mer (MW = 150 * 330Da/bp = 49,500 Da or g/mole
    • Cocn. 40.16ng/ul = 811.3 nM (40.16ng/ul/ 49,500 g/mole)
    • Volume 80ul in TE buffer. Total amount 3.21ug.
  • Probe prep plan
    • Last time of Matt's experiment on Expansion PCR of oligo from CustomArray, we need to used template ~100x more than probe synthesize from Agilent. This time I will test for expansion PCR using different amount of oligo template (concentration in expansion PCR 20nM and 100nM) and use Matt' oligos from Agilent as PC.
    • Aliquot 20ul oligo from original tube and dilute to 500nM (add 12.45ul to 20ul of 811.3nM oligo)