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# CITATION.cff file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
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cff-version: 1.2.0
message: 'To cite package "curatedOvarianData" in publications use:'
type: software
license: Artistic-2.0
title: 'curatedOvarianData: Clinically Annotated Data for the Ovarian Cancer Transcriptome'
version: 1.50.0
doi: 10.1093/database/bat013
identifiers:
- type: doi
  value: 10.32614/CRAN.package.curatedOvarianData
abstract: The curatedOvarianData package provides data for gene expression analysis
  in patients with ovarian cancer.
authors:
- family-names: Ganzfried
  given-names: Benjamin
- family-names: Riester
  given-names: Markus
- family-names: Skates
  given-names: Steve
- family-names: Wang
  given-names: Victoria
- family-names: Risch
  given-names: Thomas
- family-names: Haibe-Kains
  given-names: Benjamin
- family-names: Tyekucheva
  given-names: Svitlana
- family-names: Ding
  given-names: Jie
- family-names: Jazic
  given-names: Ina
- family-names: Birrer
  given-names: Michael
- family-names: Parmigiani
  given-names: Giovanni
- family-names: Huttenhower
  given-names: Curtis
- family-names: Waldron
  given-names: Levi
  email: lwaldron.research@gmail.com
  orcid: https://orcid.org/0000-0003-2725-0694
preferred-citation:
  type: article
  title: 'curatedOvarianData: Clinically Annotated Data for the Ovarian Cancer Transcriptome'
  authors:
  - family-names: Ganzfried
    given-names: Benjamin Frederick
  - family-names: Riester
    given-names: Markus
  - family-names: Haibe-Kains
    given-names: Benjamin
  - family-names: Risch
    given-names: Thomas
  - family-names: Tyekucheva
    given-names: Svitlana
  - family-names: Jazic
    given-names: Ina
  - family-names: Wang
    given-names: Xin Victoria
  - family-names: Ahmadifar
    given-names: Mahnaz
  - family-names: Birrer
    given-names: Michael
  - family-names: Parmigiani
    given-names: Giovanni
  - family-names: Huttenhower
    given-names: Curtis
  - family-names: Waldron
    given-names: Levi
    email: lwaldron.research@gmail.com
    orcid: https://orcid.org/0000-0003-2725-0694
  volume: '2013'
  year: '2013'
  doi: 10.1093/database/bat013
  abstract: 'This article introduces a manually curated data collection for gene expression
    meta-analysis of patients with ovarian cancer and software for reproducible preparation
    of similar databases. This resource provides uniformly prepared microarray data
    for 2970 patients from 23 studies with curated and documented clinical metadata.
    It allows users to efficiently identify studies and patient subgroups of interest
    for analysis and to perform meta-analysis immediately without the challenges posed
    by harmonizing heterogeneous microarray technologies, study designs, expression
    data processing methods and clinical data formats. We confirm that the recently
    proposed biomarker CXCL12 is associated with patient survival, independently of
    stage and optimal surgical debulking, which was possible only through meta-analysis
    owing to insufficient sample sizes of the individual studies. The database is
    implemented as the curatedOvarianData Bioconductor package for the R statistical
    computing language, providing a comprehensive and flexible resource for clinically
    oriented investigation of the ovarian cancer transcriptome. The package and pipeline
    for producing it are available from http://bcb.dfci.harvard.edu/ovariancancer.Database
    URL: http://bcb.dfci.harvard.edu/ovariancancer'
  url: http://database.oxfordjournals.org/content/2013/bat013.abstract
  journal: Database
repository: https://bioconductor.org/
commit: 9e6c447123a3312ba168aa29cbd7a5d05c058e11
url: http://bcb.dfci.harvard.edu/ovariancancer
date-released: '2025-05-05'
contact:
- family-names: Waldron
  given-names: Levi
  email: lwaldron.research@gmail.com
  orcid: https://orcid.org/0000-0003-2725-0694