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lung_nci_2022: add gene panel matrix file #1744

Merged
merged 1 commit into from
Jan 12, 2023
Merged

lung_nci_2022: add gene panel matrix file #1744

merged 1 commit into from
Jan 12, 2023

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sbabyanusha
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What?

Fix # .

Cancer studies updated in this pull request:

  • a
  • .

checks

For all pull requests:

  • Passes validation

For a new study (in addition to above):

  • Does study name and study ID follow our convention? e.g. Tumor_Type (Institue, Journal Year); brca_mskcc_2015
  • is study meta data complete? e.g. pmid, group of PUBLIC
  • were all samples profiled with WES/WGS? If not, is gene panel file curated?
  • are oncotree codes of all samples curated; Cancer Type and Cancer Type Detailed needs to be added in addition to Oncotree Code
  • clinical sample and patient data with meta files
  • mutations data with meta files
  • MAF is based on hg19
  • MAF with 2 isoforms: uniprot and mskcc
  • CNA data with meta files
  • CNA segment data with meta files
  • Expression data including z-scores with meta files
  • Case-lists for all profiles.
  • Manual checking (Niki or JJ): Triage or private Portal link here

@rmadupuri rmadupuri merged commit ccfd530 into master Jan 12, 2023
@rmadupuri rmadupuri deleted the panel_fix branch January 12, 2023 16:50
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@rmadupuri rmadupuri rmadupuri approved these changes

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@sbabyanusha @rmadupuri