makeGeneSets: demonstration of gene set construction for ivyGlimpse app

In ivygapSE: A SummarizedExperiment for Ivy-GAP data

Description

demonstration of gene set construction for ivyGlimpse app

Usage

makeGeneSets()

Value

list of gene sets with attributes facilitating dropdown construction – attr(,"fullTitle") is a list of strings associated with gene set elements (named list with vectors of gene symbols constituting sets of interest)
List of 4
$ General: Ras-Raf-MEK-Erk/JNK signaling (26 genes)
: chr [1:26] "KRAS" "HRAS" "BRAF" "RAF1" ...
$ Glioblastoma: RTK/Ras/PI3K/AKT Signaling (17 genes)
: chr [1:17] "EGFR" "ERBB2" "PDGFRA" "MET" ...
$ General: PI3K-AKT-mTOR signaling (17 genes)
: chr [1:17] "PIK3CA" "PIK3R1" "PIK3R2" "PTEN" ...
$ Ovarian Cancer: Putative tumor-suppressor genes in epithelial ovarian cancer (16 genes)
: chr [1:16] "DIRAS3" "RASSF1" "DLEC1" "SPARC" ...
- attr(*, "fullTitle")=List of 4
..$ glioRTK : chr "Glioblastoma: RTK/Ras/PI3K/AKT Signaling (17 genes)"
..$ pi3k : chr "General: PI3K-AKT-mTOR signaling (17 genes)"
..$ ovtumsupp: chr "Ovarian Cancer: Putative tumor-suppressor genes in epithelial ovarian cancer (16 genes)"
..$ rasraf : chr "General: Ras-Raf-MEK-Erk/JNK signaling (26 genes)"

Note

Should be replaced by selections from a general catalog.

Examples

str(makeGeneSets())

ivygapSE documentation built on Nov. 8, 2020, 8:08 p.m.