get.helland.subtypes: Get ovarian cancer subtypes as defined by Helland et al.,...

In bhklab/consensusOV: Gene expression-based subtype classification for high-grade serous ovarian cancer

Get ovarian cancer subtypes as defined by Helland et al., 2011

Description

Get ovarian cancer subtypes as defined by Helland et al., 2011

Usage

get.helland.subtypes(expression.matrix, entrez.ids)

Arguments

expression.matrix	A matrix of gene expression values with rows as genes, columns as samples.
entrez.ids	A vector of Entrez Gene IDs, corresponding to the rows of expression.matrix

Value

A list with first value Helland.subtypes containing a factor of subtype names; and second value subtype.scores containing a matrix of subtype scores

References

Helland et al. Deregulation of MYCN, LIN28B and LET7 in a molecular subtype of aggressive high-grade serous ovarian cancers. PloS one (2011).

Examples

library(Biobase)
data(GSE14764.eset)
expression.matrix <- exprs(GSE14764.eset)
entrez.ids <- as.character(fData(GSE14764.eset)$EntrezGene.ID)
get.helland.subtypes(expression.matrix, entrez.ids)

bhklab/consensusOV documentation built on Feb. 13, 2024, 4:50 a.m.