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Table 2 Comparison between the results of cell line sensitivity of cell lines with actionable mutations and TCGA protein profile discriminability. For each actionable gene-histotype combination, Y = yes and N = no indicate whether cell lines with actionable mutations show different drug response than cell lines without actionable mutation and if protein profiles of actionable TCGA cases of the specific histotypes have been discriminable from non-actionable ones

From: Computational analysis reveals histotype-dependent molecular profile and actionable mutation effects across cancers

Actionable gene Histotype Drug response Differences in TCGA protein profiles
BRAF SKCM* Y Y
ERBB2 BRCA* Y Y
STAD* Y Y
LUAD Y Y
PAAD N N
EGFR LUAD* Y Y
FGFR1 LUSC* Y Y
COAD N N
UCEC N Y
SKCM* Y Y
KRAS LUAD Y Y
UCEC N Y
COAD* N N
STAD N N
LUAD Y Y
MET GBM N Y
SKCM N N
STAD Y N
BRCA N Y
KIRP Y Y
KIRC* N N
OV N Y
LUAD Y Y
PIK3CA BLCA Y N
HNSC N N
STAD N Y
  1. *Histotypes where the gene is clinically established as actionable are marked. Fisher’s exact test shows there is a significant relation between protein discriminability and drug response (p = 0.0484)
  2. bold: Response to targeted drugs and protein profile differences were consistently both present (Y) or both absent (N)
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