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# CITATION 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 "octad" in publications use:'
type: software
license: Artistic-2.0
title: 'octad: Open Cancer TherApeutic Discovery (OCTAD)'
version: 1.7.0
abstract: OCTAD provides a platform for virtually screening compounds targeting precise
  cancer patient groups. The essential idea is to identify drugs that reverse the
  gene expression signature of disease by tamping down over-expressed genes and stimulating
  weakly expressed ones. The package offers deep-learning based reference tissue selection,
  disease gene expression signature creation, pathway enrichment analysis, drug reversal
  potency scoring, cancer cell line selection, drug enrichment analysis and in silico
  hit validation. It currently covers ~20,000 patient tissue samples covering 50 cancer
  types, and expression profiles for ~12,000 distinct compounds.
authors:
- family-names: Chekalin
  given-names: E.
  email: eygen.chekalin@gmail.com
- family-names: Paithankar
  given-names: S.
- family-names: Zeng
  given-names: B.
- family-names: Chen
  given-names: B.
  email: chenbi12@msu.edu
preferred-citation:
  type: article
  title: 'OCTAD: an open workspace for virtually screening therapeutics targeting
    precise cancer patient groups using gene expression features'
  authors:
  - family-names: Chekalin
    given-names: E.
    email: eygen.chekalin@gmail.com
  - family-names: Paithankar
    given-names: S.
  - family-names: Zeng
    given-names: B.
  - family-names: Glicksberg
    given-names: B.
  - family-names: Newbury
    given-names: P.
  - family-names: Xing
    given-names: J.
  - family-names: Liu
    given-names: K.
  - family-names: Wen
    given-names: A.
  - family-names: Joseph
    given-names: D.
  - family-names: Chen
    given-names: B.
    email: chenbi12@msu.edu
  journal: Nature protocols
  year: '2021'
  issue: '16'
  url: http://octad.org/
  start: 728-753
repository: https://bioc.r-universe.dev
contact:
- family-names: Chekalin
  given-names: E.
  email: eygen.chekalin@gmail.com