Brief Communications Arising | Published:

Safikhani et al. reply

Nature volume 540, pages E11E12 (01 December 2016) | Download Citation

Access optionsAccess options

Rent or Buy article

Get time limited or full article access on ReadCube.

from$8.99

All prices are NET prices.

References

  1. 1.

    et al. Drug response consistency in CCLE and CGP. Nature 540, (2016)

  2. 2.

    et al. Systematic identification of genomic markers of drug sensitivity in cancer cells. Nature 483, 570–575 (2012)

  3. 3.

    et al. The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity. Nature 483, 603–607 (2012)

  4. 4.

    et al. Integrating heterogeneous drug sensitivity data from cancer pharmacogenomic studies. Oncotarget (2016)

  5. 5.

    et al. Consistency in drug response profiling. Nature 540, (2016)

  6. 6.

    et al. PharmacoGx: An R package for analysis of large pharmacogenomic datasets. Bioinformatics 32, 1244–1246 (2015)

  7. 7.

    et al. Inconsistency in large pharmacogenomic studies. Nature 504, 389–393 (2013)

  8. 8.

    et al. Revisiting inconsistency in large pharmacogenomic studies. F1000Research (2016)

  9. 9.

    Comparison of the predicted and observed secondary structure of T4 phage lysozyme. Biochim. Biophys. Acta 405, 442–451 (1975)

  10. 10.

    & The measurement of observer agreement for categorical data. Biometrics 33, 159–174 (1977)

  11. 11.

    et al. Harnessing connectivity in a large-scale small-molecule sensitivity dataset. Cancer Discov. 5, 1210–1223 (2015)

  12. 12.

    et al. A landscape of pharmacogenomic interactions in cancer. Cell 166, 740–754 (2016)

  13. 13.

    , , & Ten simple rules for reproducible computational research. PLoS Comput. Biol. 9, e1003285 (2013)

Download references

Author information

Affiliations

  1. Princess Margaret Cancer Centre, University Health Network, Toronto, Ontario M5G 2M9, Canada.email: benjamin.haibe.kains@utoronto.ca

    • Zhaleh Safikhani
    • , Petr Smirnov
    • , Mark Freeman
    •  & Benjamin Haibe-Kains
  2. Department of Medical Biophysics, University of Toronto, Toronto, Ontario M5G 1L7, Canada

    • Zhaleh Safikhani
    •  & Benjamin Haibe-Kains
  3. Institut de recherches cliniques de Montréal, Montreal, Quebec H2W 1R7, Canada

    • Nehme El-Hachem
  4. Hospital for Sick Children, Toronto, Ontario M5G 1X8, Canada

    • Anna Goldenberg
  5. Department of Computer Science, University of Toronto, Toronto, Ontario M5S 2E4, Canada

    • Anna Goldenberg
    •  & Benjamin Haibe-Kains
  6. The Francis Crick Institute, University College London, London NW1 1AT, UK

    • Nicolai J. Birkbak
  7. Beth Israel Deaconess Medical Center, Boston, Massachusetts 02215, USA

    • Andrew H. Beck
  8. Harvard Medical School, Boston, Massachusetts 02115, USA

    • Andrew H. Beck
    •  & Hugo J. W. L. Aerts
  9. Dana-Farber Cancer Institute, Boston, Massachusetts 02115, USA

    • Hugo J. W. L. Aerts
    •  & John Quackenbush
  10. Brigham and Women’s Hospital, Boston, Massachusetts 02115, USA

    • Hugo J. W. L. Aerts
  11. Harvard School of Public Health, Boston, Massachusetts 02115, USA

    • John Quackenbush
  12. Ontario Institute of Cancer Research, Toronto, Ontario M5G 1L7, Canada

    • Benjamin Haibe-Kains

Authors

  1. Search for Zhaleh Safikhani in:

  2. Search for Nehme El-Hachem in:

  3. Search for Petr Smirnov in:

  4. Search for Mark Freeman in:

  5. Search for Anna Goldenberg in:

  6. Search for Nicolai J. Birkbak in:

  7. Search for Andrew H. Beck in:

  8. Search for Hugo J. W. L. Aerts in:

  9. Search for John Quackenbush in:

  10. Search for Benjamin Haibe-Kains in:

Supplementary information

PDF files

  1. 1.

    Supplementary Information

    This file contains Supplementary Methods, Supplementary Text and Data, Supplementary Figures 1 -6 and additional references.

About this article

Publication history

Published

DOI

https://doi.org/10.1038/nature20581

Comments

By submitting a comment you agree to abide by our Terms and Community Guidelines. If you find something abusive or that does not comply with our terms or guidelines please flag it as inappropriate.

Newsletter Get the most important science stories of the day, free in your inbox. Sign up for Nature Briefing