dot-plot_CoxPH_RNAseq_TCGA: Survival analyses of TCGA patients with expression in their...

In a3609640/eIF4F.analysis: A R package to analyze eIF4F subunits in human cancers

Survival analyses of TCGA patients with expression in their tumors by Cox-PH method

Description

This function makes regression models between the gene expression within tumor samples and patient overall survival time.

Usage

.plot_CoxPH_RNAseq_TCGA(gene_list, tumor)

Arguments

gene_list	gene names in a vector of characters
tumor	all tumor types or specific type

Details

This function

• selects RNAseq of the query gene, survival data and cancer types from the dataset TCGA_RNAseq_OS_sampletype prepared from initialize_survival_data().

• makes univariable regression models with .univariable_analysis() and multivariable regression models with .multivariable_analysis().

• plots the results as a forest graph with .forest_graph()

This function is not accessible to the user and will not show at the users' workspace. It can only be called by the exported EIF4F_Survival_analysis() function.

Side effects:

(1) forest graphs on screen and as pdf file to show the relation between survival of TCGA patients and expression of gene_list in their tumors by univariable and multivariable regression models

See Also

Other composite function to call survival analysis and plotting: .plot_KM_RNAseq_TCGA()

Examples

## Not run: 
.plot_CoxPH_RNAseq_TCGA(c(
  "EIF4E", "EIF4E2", "EIF4E3",
  "EIF4G1", "EIF4G2", "EIF4G3", "EIF4A1", "EIF4A2", "EIF3D", "EIF3E",
  "EIF4EBP1", "EIF4EBP2", "MKNK1", "MKNK2", "EIF4B", "EIF4H", "MTOR", "MYC"
), "All")

## End(Not run)

a3609640/eIF4F.analysis documentation built on Jan. 2, 2023, 11:19 p.m.