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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 "DepInfeR" in publications use:'
type: software
license: GPL-3.0-only
title: 'DepInfeR: Inferring tumor-specific cancer dependencies through integrating
  ex-vivo drug response assays and drug-protein profiling'
version: 1.9.0
doi: 10.1101/2022.01.11.475864
abstract: 'DepInfeR integrates two experimentally accessible input data matrices:
  the drug sensitivity profiles of cancer cell lines or primary tumors ex-vivo (X),
  and the drug affinities of a set of proteins (Y), to infer a matrix of molecular
  protein dependencies of the cancers (ß). DepInfeR deconvolutes the protein inhibition
  effect on the viability phenotype by using regularized multivariate linear regression.
  It assigns a “dependence coefficient” to each protein and each sample, and therefore
  could be used to gain a causal and accurate understanding of functional consequences
  of genomic aberrations in a heterogeneous disease, as well as to guide the choice
  of pharmacological intervention for a specific cancer type, sub-type, or an individual
  patient. For more information, please read out preprint on bioRxiv: https://doi.org/10.1101/2022.01.11.475864.'
authors:
- family-names: Lu
  given-names: Junyan
  email: jylu1118@gmail.com
  orcid: https://orcid.org/0000-0002-9211-0746
- family-names: Batzilla
  given-names: Alina
preferred-citation:
  type: article
  title: Inferring tumor-specific cancer dependencies through integrating ex-vivo
    drug response assays and drug-protein profiling
  authors:
  - family-names: Batzilla
    given-names: Alina
  - family-names: Lu
    given-names: Junyan
    email: jylu1118@gmail.com
    orcid: https://orcid.org/0000-0002-9211-0746
  - family-names: Kivioja
    given-names: Jarno
  - family-names: Putzker
    given-names: Kerstin
  - family-names: Lewis
    given-names: Joe
  - family-names: Zenz
    given-names: Thorsten
  - family-names: Huber
    given-names: Wolfgang
  journal: bioRxiv
  year: '2022'
  doi: 10.1101/2022.01.11.475864
  url: https://www.biorxiv.org/content/10.1101/2022.01.11.475864v1
repository: https://bioc.r-universe.dev
repository-code: https://github.com/Huber-group-EMBL/DepInfeR
url: https://github.com/Huber-group-EMBL/DepInfeR
contact:
- family-names: Lu
  given-names: Junyan
  email: jylu1118@gmail.com
  orcid: https://orcid.org/0000-0002-9211-0746