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2019 CCLE CNA Data Fix #2283

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2019 CCLE CNA Data Fix #2283
Rima-Waleed wants to merge 1 commit into
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2019_ccle

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@Rima-Waleed

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Study: ccle_broad_2019
Issue: The issue with the data_CNA.txt file was found after investigating user question #2269 and going through the source file 'CCLE_MUT_CNA_AMP_DEL_binary_Revealer.gct’ to confirm the binary CNA -> discrete CNA rule was followed.

The following issues was found:

  • 10 duplicate gene rows (SNAP47, FAM153B, RAB34, PALM2AKAP2, S1PR3, QSOX1, BTBD8, MACF1, MYO18A, ELMOD1)
  • 2 genes with mismatched rows (FAM153B and QSOX1)
  • 1 gene with mutated status (EEF1E1 and EEF1E1_MUT)

Fixes in this new file:

  • Duplicate gene rows removed
  • Genes with mismatched rows fixed by referring to the source file and following the rule (merged the two rows)
  • Mutated gene status removed and gene details confirmed

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