# --------------------------------------------
# CITATION file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
# --------------------------------------------
 
cff-version: 1.2.0
message: 'To cite package "AMARETTO" in publications use:'
type: software
license: Apache-2.0
title: 'AMARETTO: Regulatory Network Inference and Driver Gene Evaluation using Integrative
  Multi-Omics Analysis and Penalized Regression'
version: 1.21.0
doi: 10.32614/CRAN.package.AMARETTO
abstract: Integrating an increasing number of available multi-omics cancer data remains
  one of the main challenges to improve our understanding of cancer. One of the main
  challenges is using multi-omics data for identifying novel cancer driver genes.
  We have developed an algorithm, called AMARETTO, that integrates copy number, DNA
  methylation and gene expression data to identify a set of driver genes by analyzing
  cancer samples and connects them to clusters of co-expressed genes, which we define
  as modules. We applied AMARETTO in a pancancer setting to identify cancer driver
  genes and their modules on multiple cancer sites. AMARETTO captures modules enriched
  in angiogenesis, cell cycle and EMT, and modules that accurately predict survival
  and molecular subtypes. This allows AMARETTO to identify novel cancer driver genes
  directing canonical cancer pathways.
authors:
- family-names: Gevaert
  given-names: Olivier
  email: olivier.gevaert@gmail.com
- family-names: Shinde
  given-names: Jayendra
- family-names: Everaert
  given-names: Celine
- family-names: Bakr
  given-names: Shaimaa
- family-names: Nabian
  given-names: Mohsen
- family-names: Xu
  given-names: Jishu
- family-names: Carey
  given-names: Vincent
- family-names: Pochet
  given-names: Nathalie
repository: https://bioc.r-universe.dev
commit: c18b40e9e8b88967116ffd832049aa69a4f920b4
date-released: '2016-06-06'
contact:
- family-names: Gevaert
  given-names: Olivier
  email: olivier.gevaert@gmail.com