Obtain the OncoKB cancer gene list

Usage

cancerGeneList(api)

Arguments

api: An OncoKB API instance as returned by oncoKB()

Value

A long tibble of genes with additional columns

Examples


oncokb <- oncoKB()
cancerGeneList(oncokb)
#> # A tibble: 3,275 × 17
#>    hugoSymbol entrezGeneId grch37Isoform grch37RefSeq grch38Isoform grch38RefSeq
#>    <chr>             <int> <chr>         <chr>        <chr>         <chr>       
#>  1 ABL1                 25 ENST00000318… NM_005157.4  ENST00000318… NM_005157.4 
#>  2 ABL1                 25 ENST00000318… NM_005157.4  ENST00000318… NM_005157.4 
#>  3 ABL1                 25 ENST00000318… NM_005157.4  ENST00000318… NM_005157.4 
#>  4 AKT1                207 ENST00000349… NM_00101443… ENST00000349… NM_00101443…
#>  5 AKT1                207 ENST00000349… NM_00101443… ENST00000349… NM_00101443…
#>  6 AKT1                207 ENST00000349… NM_00101443… ENST00000349… NM_00101443…
#>  7 AKT1                207 ENST00000349… NM_00101443… ENST00000349… NM_00101443…
#>  8 AKT1                207 ENST00000349… NM_00101443… ENST00000349… NM_00101443…
#>  9 ALK                 238 ENST00000389… NM_004304.4  ENST00000389… NM_004304.4 
#> 10 AMER1            139285 ENST00000330… NM_152424.3  ENST00000374… NM_152424.3 
#> # ℹ 3,265 more rows
#> # ℹ 11 more variables: oncokbAnnotated <lgl>, occurrenceCount <int>,
#> #   mSKImpact <lgl>, mSKHeme <lgl>, foundation <lgl>, foundationHeme <lgl>,
#> #   vogelstein <lgl>, sangerCGC <lgl>, geneAliases <list>, tsg <lgl>,
#> #   oncogene <lgl>