Athurva Gore/LabNotes/2009-9-9: Difference between revisions
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* Need to use Primer3 to obtain PCR primers for regions of interest. | * Need to use Primer3 to obtain PCR primers for regions of interest. | ||
** Have five regions of interest: 2 from GOH, 3 from LOH | ** Have five regions of interest: 2 from GOH, 3 from LOH | ||
** Get book on DNA methods? Or talk to Alice or Ida about it | |||
** Pull out sequences of an optimal length around SNP plus flanking regions |
Revision as of 21:27, 9 September 2009
Exome Resequencing
IPS and Cancer
LOH Mutations
- Need to check LOH mutations; is the new variant the damaging one? Or the old one?
- If nondamaging version is lost, this is not actually harmful to the cell...
- Modified SIFT input to have fibroblast first, IPS second
- Can now easily check if damage is gained or lost.
- ALL DAMAGING MUTATIONS: The non-damaging variant was lost via LOH!
- True for most (all but 3) tolerated mutations as well
- Strange. Will need to investigate with Primers...
PCR Primers for target Genes
- Need to use Primer3 to obtain PCR primers for regions of interest.
- Have five regions of interest: 2 from GOH, 3 from LOH
- Get book on DNA methods? Or talk to Alice or Ida about it
- Pull out sequences of an optimal length around SNP plus flanking regions