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@ARTICLE{ElHarouni:177744,
      author       = {D. ElHarouni$^*$ and Y. Berker$^*$ and H. Peterziel$^*$ and
                      A. Gopisetty$^*$ and L. Turunen and S. Kreth$^*$ and S. A.
                      Stainczyk$^*$ and I. Oehme$^*$ and V. Pietiäinen and N.
                      Jäger$^*$ and O. Witt$^*$ and M. Schlesner$^*$ and S.
                      Oppermann$^*$},
      title        = {i{TR}e{X}: {I}nteractive exploration of mono- and
                      combination therapy dose response profiling data.},
      journal      = {Pharmacological research},
      volume       = {175},
      issn         = {0031-6989},
      address      = {London},
      publisher    = {Academic Press},
      reportid     = {DKFZ-2021-02785},
      pages        = {105996},
      year         = {2022},
      note         = {#EA:B062#LA:B310# / 2022 Jan;175:105996},
      abstract     = {High throughput screening methods, measuring the
                      sensitivity and resistance of tumor cells to drug treatments
                      have been rapidly evolving. Not only do these screens allow
                      correlating response profiles to tumor genomic features for
                      developing novel predictors of treatment response, but they
                      can also add evidence for therapy decision making in
                      precision oncology. Recent analysis methods developed for
                      either assessing single agents or combination drug
                      efficacies enable quantification of dose-response curves
                      with restricted symmetric fit settings. Here, we introduce
                      iTReX, a user-friendly and interactive Shiny/R application,
                      for both the analysis of mono- and combination therapy
                      responses. The application features an extended version of
                      the drug sensitivity score (DSS) based on the integral of an
                      advanced five-parameter dose-response curve model and a
                      differential DSS for combination therapy profiling.
                      Additionally, iTReX includes modules that visualize drug
                      target interaction networks and support the detection of
                      matches between top therapy hits and the sample omics
                      features to enable the identification of druggable targets
                      and biomarkers. iTReX enables the analysis of various
                      quantitative drug or therapy response readouts (e.g.
                      luminescence, fluorescence microscopy) and multiple
                      treatment strategies (drug treatments, radiation). Using
                      iTReX we validate a cost-effective drug combination
                      screening approach and reveal the application's ability to
                      identify potential sample-specific biomarkers based on drug
                      target interaction networks. The iTReX web application is
                      accessible at (https://itrex.kitz-heidelberg.de).},
      keywords     = {Therapy response profiling and exploration (Other) /
                      asymmetric sensitivity scoring (Other) / differential
                      combination sensitivity scoring (Other) / drug target
                      networks (Other) / interactive drug screen analysis (Other)
                      / personalized medicine (Other)},
      cin          = {B062 / B310 / B087 / B240 / HD01},
      ddc          = {610},
      cid          = {I:(DE-He78)B062-20160331 / I:(DE-He78)B310-20160331 /
                      I:(DE-He78)B087-20160331 / I:(DE-He78)B240-20160331 /
                      I:(DE-He78)HD01-20160331},
      pnm          = {312 - Funktionelle und strukturelle Genomforschung
                      (POF4-312)},
      pid          = {G:(DE-HGF)POF4-312},
      typ          = {PUB:(DE-HGF)16},
      pubmed       = {pmid:34848323},
      doi          = {10.1016/j.phrs.2021.105996},
      url          = {https://inrepo02.dkfz.de/record/177744},
}