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.