analyze_gene_drug_response_diff {UCSCXenaShiny} | R Documentation |
Analyze Difference of Drug Response (IC50 Value (uM)) between Gene (Signature) High and Low Expression with CCLE Data
Description
Analyze Difference of Drug Response (IC50 Value (uM)) between Gene (Signature) High and Low Expression with CCLE Data
Usage
analyze_gene_drug_response_diff(
gene_list,
drug = "ALL",
tissue = "ALL",
combine = FALSE,
cutpoint = c(50, 50)
)
Arguments
gene_list |
a gene symbol list. |
drug |
a drug name. Check examples. |
tissue |
a tissue name. Check examples. |
combine |
if |
cutpoint |
cut point (in percent) for High and Low group, default is |
Value
a data.frame
.
Examples
tissue_list <- c(
"prostate", "central_nervous_system", "urinary_tract", "haematopoietic_and_lymphoid_tissue",
"kidney", "thyroid", "soft_tissue", "skin", "salivary_gland",
"ovary", "lung", "bone", "endometrium", "pancreas", "breast",
"large_intestine", "upper_aerodigestive_tract", "autonomic_ganglia",
"stomach", "liver", "biliary_tract", "pleura", "oesophagus"
)
drug_list <- c(
"AEW541", "Nilotinib", "17-AAG", "PHA-665752", "Lapatinib",
"Nutlin-3", "AZD0530", "PF2341066", "L-685458", "ZD-6474", "Panobinostat",
"Sorafenib", "Irinotecan", "Topotecan", "LBW242", "PD-0325901",
"PD-0332991", "Paclitaxel", "AZD6244", "PLX4720", "RAF265", "TAE684",
"TKI258", "Erlotinib"
)
target_list <- c(
"IGF1R", "ABL", "HSP90", "c-MET", "EGFR", "MDM2", "GS", "HDAC",
"RTK", "TOP1", "XIAP", "MEK", "CDK4", "TUBB1", "RAF", "ALK", "FGFR"
)
## Not run:
analyze_gene_drug_response_diff("TP53")
analyze_gene_drug_response_diff(c("TP53", "KRAS"), drug = "AEW541")
analyze_gene_drug_response_diff(c("TP53", "KRAS"),
tissue = "kidney",
combine = TRUE
)
# Visualization
vis_gene_drug_response_diff("TP53")
## End(Not run)
[Package UCSCXenaShiny version 2.1.0 Index]