makeGeneSets: demonstration of gene set construction for ivyGlimpse app

In vjcitn/ivygapSE: A SummarizedExperiment for Ivy-GAP data

demonstration of gene set construction for ivyGlimpse app

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())

vjcitn/ivygapSE documentation built on May 6, 2022, 5:50 a.m.