AlanFung:LabNotes/2015/2015-6-3: Difference between revisions

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>Alan6017518
(Created page with "==Background== * Noi made a batch of WGBS libraries on the whole blood DNA from Dr. Rana’s lab. * Dr. Rana has obtained some sequencing fund, and would like to get them seq...")
 
>Alan6017518
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* She got very faint smear or barely see a smear in many samples by amplifying about 16-18  cycles, which is very unlikely for DNA input ~100ng
* She got very faint smear or barely see a smear in many samples by amplifying about 16-18  cycles, which is very unlikely for DNA input ~100ng
* Noi doesn't know why this is the case but I will give a a try.
* Noi doesn't know why this is the case but I will give a a try.
==Covaris gDNA shearing (2015-06-09)==
* Called IGM to reserve the Covaris Shearing Machine.
* I will shear 400ng of samples in case we need to repeat experiment again.
*

Revision as of 22:58, 8 June 2015

Background

  • Noi made a batch of WGBS libraries on the whole blood DNA from Dr. Rana’s lab.
  • Dr. Rana has obtained some sequencing fund, and would like to get them sequenced.
  • If the libraries are good, can you tell Alan where to locate those libraries, so that we can send them to BioGem?
  • Noi's wiki [[1]]
  • Dinh found the gDNA samples from Dr. Rana in Noi's box.
  • Noi's wiki page shows that the library preparation failed and didn't have time to repeat experiment [[2]]
  • From the labels, Noi got about 1 ug of the samples and only used 200 ng, we should have 800ng for library prep.
  • I will repeat the library prep follow the exact protocol that you did with the tumor WGBS libraries?
  • Noi confirmed that the experiment failed for the first round of experiment and she did try a second time and still the result was not very good
  • She got very faint smear or barely see a smear in many samples by amplifying about 16-18 cycles, which is very unlikely for DNA input ~100ng
  • Noi doesn't know why this is the case but I will give a a try.

Covaris gDNA shearing (2015-06-09)

  • Called IGM to reserve the Covaris Shearing Machine.
  • I will shear 400ng of samples in case we need to repeat experiment again.