genefu

genefu is an R library containing gene signatures and functions for molecular sub-typing and forecasting in breast cancer data. The genefu package includes functions to map genes between distinct microarray platforms, identify molecular sub-types, select genes, conduct survival analysis, and includes published gene signatures.

Topic

Microarray experiment;Gene expression;Oncology

Detail

  • Operation: Gene expression analysis;Genetic mapping

  • Software interface: Library

  • Language: R

  • License: The Artistic License 2.0

  • Cost: Free

  • Version name: 2.34.0

  • Credit: CIBC-Brain Canada Brain Cancer Research Training Award, the Gattuso Slaight Personalized Cancer Medicine Fund, Cancer Research Society, CIHR Grant, the Instituto de Salud Carlos III, a Career Catalyst Grant from the Susan Komen Foundation, Banco Bilbao Vizcaya Argentaria (BBVA) Foundation.

  • Input: -

  • Output: -

  • Contact: Benjamin Haibe-Kains benjamin.haibe.kains@utoronto.ca, Markus S. Schröder markus.schroeder@ucdconnect.ie

  • Collection: -

  • Maturity: Mature

Publications

  • Genefu: an R/Bioconductor package for computation of gene expression-based signatures in breast cancer.
  • Gendoo DM, Ratanasirigulchai N, Schröder MS, Paré L, Parker JS, Prat A, Haibe-Kains B. Genefu: an R/Bioconductor package for computation of gene expression-based signatures in breast cancer. Bioinformatics. 2016 Apr 1;32(7):1097-9. doi: 10.1093/bioinformatics/btv693. Epub 2015 Nov 24. PMID: 26607490; PMCID: PMC6410906.
  • https://doi.org/10.1093/bioinformatics/btv693
  • PMID: 26607490
  • PMC: PMC6410906

Download and documentation

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