Athurva Gore/LabNotes/2009-9-9: Difference between revisions

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=IPS and Cancer=
=IPS and Cancer=
==LOH Mutations==
* Need to check LOH mutations; is the new variant the damaging one?  Or the old one?
* 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...
** If nondamaging version is lost, this is not actually harmful to the cell...
** Modified SIFT input to have fibroblast first, IPS second
** Modified SIFT input to have fibroblast first, IPS second
** Can now easily check if damage is gained or lost.
** Can now easily check if damage is gained or lost.
* ALL DAMAGING MUTATIONS: The non-damaging variant was lost via LOH!
** 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

Revision as of 21:13, 9 September 2009

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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!
    • 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