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cff-version: 1.2.0
message: 'To cite package "AnnotatedBCGEData" in publications use:'
type: software
license: CC0-1.0
title: 'AnnotatedBCGEData: 100+ Curated Breast Cancer Gene Expression Data sets'
version: 0.99.11
doi: 10.32614/CRAN.package.AnnotatedBCGEData
abstract: AnnotatedBCGEData is an R Bioconductor package that provides access to more
  than 100 gene-expression datasets generated using microarray and RNA- sequencing
  technologies. We collected these datsets from public repositories, including Gene
  Expression Omnibus, ArrayExpress, and The Cancer Genome Atlas. Where feasible, we
  obtained and reprocessed the raw data using computational pipelines and annotations
  that were standardized and more updated than those used to process the data originally.
  Additionally, we annotated the sample metadata using oncology terms from the National
  Cancer Institute Thesaurus. This was necessary because different data submitters
  used different terminology to describe breast-cancer patients and samples. Mapping
  the metadata to ontology terms makes it possible for users to search the data using
  these standardized terms.
authors:
- family-names: Steadman
  given-names: Heidi
  email: hstead05@byu.edu
- family-names: Lo
  given-names: Shu-Fei
  email: shufeilo@byu.edu
- family-names: Piccolo
  given-names: Stephen
  email: stephen_piccolo@byu.edu
  orcid: https://orcid.org/0000-0003-2001-5640
repository: https://bioc.r-universe.dev
repository-code: https://github.com/srp33/AnnotatedBCGEData/
commit: 72c4a55e4a7bbe674fcbc93ca900c1806fd4469a
url: https://github.com/srp33/AnnotatedBCGEData
date-released: '2025-10-16'
contact:
- family-names: Piccolo
  given-names: Stephen
  email: stephen_piccolo@byu.edu
  orcid: https://orcid.org/0000-0003-2001-5640