Gene expression of 108 CCLE cell lines from 5 different pediatric cancers.
Usage
data("pedcan_expression", package = "scimo")Format
A tibble with columns:
- cell_line
Cell line name.
- sex
One of
Male,FemaleorUnknown.- event
One of
Primary,MetastasisorUnknown.- disease
One of
Neuroblastoma,Ewing Sarcoma,Rhabdomyosarcoma,Embryonal TumororOsteosarcoma.- other columns
Expression of the gene, given in log2(TPM + 1).
Source
This dataset is generated from DepMap Public 23Q4 primary files. https://depmap.org/portal/download/all/.
Examples
data("pedcan_expression", package = "scimo")
pedcan_expression
#> # A tibble: 108 × 19,197
#> cell_line sex event disease A1BG A1CF A2M A2ML1 A3GALT2 A4GALT A4GNT
#> <chr> <chr> <chr> <chr> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl>
#> 1 143B Fema… Prim… Osteos… 3.02 0.0566 2.78 0 0 2.13 0
#> 2 A-673 Fema… Prim… Ewing … 4.87 0 2.00 3.19 0.0841 4.62 0.189
#> 3 BT-12 Fema… Prim… Embryo… 3.52 0.0286 0.111 0 0 2.32 0.0704
#> 4 BT-16 Male Unkn… Embryo… 3.51 0 0.433 0.0144 0 1.54 0.0144
#> 5 C396 Male Meta… Osteos… 4.59 0 0.956 0 0 5.10 0
#> 6 CADO-ES1 Fema… Meta… Ewing … 5.89 0 0.614 0.379 0.0704 6.60 0.151
#> 7 CAL-72 Male Prim… Osteos… 4.35 0.0426 0.333 0 0 0.614 0
#> 8 CBAGPN Fema… Prim… Ewing … 4.87 0.0976 1.33 0.111 0 0.722 0.0704
#> 9 CHLA-06 Fema… Unkn… Embryo… 5.05 0 0.124 0 0 0.848 0.138
#> 10 CHLA-10 Fema… Unkn… Ewing … 5.05 0.0144 0.949 1.73 0.0704 0.506 0.0704
#> # ℹ 98 more rows
#> # ℹ 19,186 more variables: AAAS <dbl>, AACS <dbl>, AADAC <dbl>, AADACL2 <dbl>,
#> # AADACL3 <dbl>, AADACL4 <dbl>, AADAT <dbl>, AAGAB <dbl>, AAK1 <dbl>,
#> # AAMDC <dbl>, AAMP <dbl>, AANAT <dbl>, AAR2 <dbl>, AARD <dbl>, AARS1 <dbl>,
#> # AARS2 <dbl>, AARSD1 <dbl>, AASDH <dbl>, AASDHPPT <dbl>, AASS <dbl>,
#> # AATF <dbl>, AATK <dbl>, ABAT <dbl>, ABCA1 <dbl>, ABCA10 <dbl>,
#> # ABCA12 <dbl>, ABCA13 <dbl>, ABCA2 <dbl>, ABCA3 <dbl>, ABCA4 <dbl>, …