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Genefu: an R/Bioconductor package for computation of gene expression-based signatures in breast cancer
Open accessAbstract
Summary: Breast cancer is one of the most frequent cancers among women. Extensive studies into the molecular heterogeneity of breast cancer have produced a plethora of molecular subtype classification and prognosis prediction algorithms, as well as numerous gene expression signatures. However, reimplementation of these algorithms is a tedious but important task to enable comparison of existing signatures and classification models between each other and with new models. Here, we present the genefu R/Bioconductor package, a multi-tiered compendium of bioinformatics algorithms and gene signatures for molecular subtyping and prognostication in breast cancer. Availability and implementation: The genefu package is available from Bioconductor. http://www.bioconductor.org/packages/devel/bioc/html/genefu.html. Source code is also available on Github https://github.com/bhklab/genefu. Contact: bhaibeka@uhnresearch.ca Supplementary information: Supplementary data are available at Bioinformatics online.
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Comprehensive molecular portraits of human breast tumours
The Cancer Genome Atlas Network (2012) · Nature · doi:10.1038/nature11412 · Cited by 12,129
The genomic and transcriptomic architecture of 2,000 breast tumours reveals novel subgroups
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Buqué, A., Bloy, N., Perez-Lanzón, M., Iribarren, K., Humeau, J., Pol, J. G., Levesque, S., Mondragon, L., Yamazaki, T., Sato, A., et al. (2020) · Nature Communications · doi:10.1038/s41467-020-17644-0 · Cited by 138
Metadata
- Authors
- Gendoo, D. M. A., Ratanasirigulchai, N., Schröder, M. S., Paré, L., Parker, J. S., Prat, A., & Haibe-Kains, B.
- Venue
- Bioinformatics
- Publisher
- Oxford University Press (OUP)
- Published
- 2015-11-24
- Volume
- 32
- Issue
- 7
- Pages
- 1097-1099
- ISSN
- 1367-4803 (ISSN-L)
- 1367-4811
- OpenAlex
- W2172358623
- Cited by
- 394
- References
- 2
- FWCI
- 4.61
- Type
- journal article
- Language
- en
- Open access
- bronze
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