scmgene.robust: Subtype Clustering Model using only ESR1, ERBB2 and AURKA...

In bhklab/genefu: Computation of Gene Expression-Based Signatures in Breast Cancer

Subtype Clustering Model using only ESR1, ERBB2 and AURKA genes for identification of breast cancer molecular subtypes

Description

List of parameters defining the Subtype Clustering Model as published in Wirapati et al 2009 and Desmedt et al 2008 but using single genes instead of gene modules.

Usage

data(scmgene.robust)

Format

List of parameters for SCMGENE:

• parameters: List of parameters for the mixture of three Gaussians (ER-/HER2-, HER2+ and ER+/HER2-) that define the Subtype Clustering Model. The structure is the same than for an mclust::Mclust object.

• cutoff.AURKA: Cutoff for AURKA module score in order to identify ER+/HER2- High Proliferation (aka Luminal B) tumors and ER+/HER2- Low Proliferation (aka Luminal A) tumors.

• mod: ESR1, ERBB2 and AURKA modules.

Source

http://clincancerres.aacrjournals.org/content/14/16/5158.abstract?ck=nck

References

Desmedt C, Haibe-Kains B, Wirapati P, Buyse M, Larsimont D, Bontempi G, Delorenzi M, Piccart M, and Sotiriou C (2008) "Biological processes associated with breast cancer clinical outcome depend on the molecular subtypes", Clinical Cancer Research, 14(16):5158–5165.

bhklab/genefu documentation built on June 2, 2022, 2:56 p.m.