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NCBI-Hackathons / Cancer_Epitopes_CSHL

A pipeline to approximate the immunogenicity of peptides resulting from cancer mutations based on structure and other factors.
MIT License
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Strategies for variant prioritization #8

Open friedue opened 7 years ago

friedue commented 7 years ago
DCGenomics commented 7 years ago

Heres a list of cancer variant databases:

https://github.com/seandavi/awesome-cancer-variant-databases

Cheers!

Ben

On Wed, Nov 9, 2016 at 9:22 AM, Friederike Dündar notifications@github.com wrote:

  • check the MAF's of variants (shouldn't be frequent) - can be done with VEP
  • filter on expression
  • filter/sort on the delta
  • Check if the top variants are known cancer variants
    • Use ClinVar
    • vcf from ICGC

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