Skip to main content

Thank you for visiting nature.com. You are using a browser version with limited support for CSS. To obtain the best experience, we recommend you use a more up to date browser (or turn off compatibility mode in Internet Explorer). In the meantime, to ensure continued support, we are displaying the site without styles and JavaScript.

The UCSC Cancer Genomics Browser

Nature Methods volume 6, pages 239–240 (2009)Cite this article

To the Editor: Advances in high-throughput genomics have reshaped the cancer research landscape. Complete characterization of genomic, epigenomic and transcriptomic changes of tumors, combined with clinical characterization, will help predict pathological behavior and effective treatments. However, comprehensive analysis of the cancer genome remains a daunting challenge. We must visualize, integrate, compare and analyze large cancer genomics datasets. Ultimately, these data and the resulting conclusions must be presented to the scientific and medical communities in a coherent, integrated system for display and analysis informed by current knowledge about human genome biology and variation.

This is a preview of subscription content, access via your institution

Relevant articles

Open Access articles citing this article.

Access options

Buy article

Get time limited or full article access on ReadCube.

$32.00

Buy

All prices are NET prices.

Figure 1: The functionality of UCSC Cancer Genomics Browser.

References

  1. Karolchik, D. et al. Nucleic Acids Res. 36, D773–D779 (2008).

    Article  CAS  Google Scholar 

  2. Kent, W.J. et al. Genome Res. 12, 996–1006 (2002).

    Article  CAS  Google Scholar 

  3. Chin, K. et al. Cancer Cell 10, 529–541 (2006).

    Article  CAS  Google Scholar 

  4. Chin, S.F. et al. Genome Biol. 8, R215:1–R215:17 (2007).

    Article  Google Scholar 

  5. TCGA Research Network Nature 455, 1061–1068 (2008).

Download references

Author information

Author notes

  1. Jingchun Zhu, J Zachary Sanborn and Stephen Benz: These authors contributed equally to this work.

Authors and Affiliations

  1. Center for Biomolecular Science and Engineering, University of California at Santa Cruz, Santa Cruz, California, USA

    Jingchun Zhu, J Zachary Sanborn, Stephen Benz, Christopher Szeto, Fan Hsu, Robert M Kuhn, Donna Karolchik, John Archie, W James Kent, David Haussler & Ting Wang

  2. Department of Pathology and Laboratory Medicine, Boston University Medical School, Boston, Massachusetts, USA

    Marc E Lenburg

  3. Department of Surgery, University of California at San Francisco, San Francisco, California, USA

    Laura J Esserman

  4. Howard Hughes Medical Institute, University of California at Santa Cruz, Santa Cruz, California, USA

    David Haussler

Authors
  1. Jingchun Zhu
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. J Zachary Sanborn
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Stephen Benz
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Christopher Szeto
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Fan Hsu
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. Robert M Kuhn
    View author publications

    You can also search for this author in PubMed Google Scholar

  7. Donna Karolchik
    View author publications

    You can also search for this author in PubMed Google Scholar

  8. John Archie
    View author publications

    You can also search for this author in PubMed Google Scholar

  9. Marc E Lenburg
    View author publications

    You can also search for this author in PubMed Google Scholar

  10. Laura J Esserman
    View author publications

    You can also search for this author in PubMed Google Scholar

  11. W James Kent
    View author publications

    You can also search for this author in PubMed Google Scholar

  12. David Haussler
    View author publications

    You can also search for this author in PubMed Google Scholar

  13. Ting Wang
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding authors

Correspondence to David Haussler or Ting Wang.

Supplementary information

Supplementary Text and Figures

Supplementary Figures 1–8, Supplementary Table 2, Supplementary Notes, Supplementary Methods, Supplementary Tutorial (PDF 2256 kb)

Supplementary Table 1

Genesets or pathways in the UCSC Cancer Genomics Browser (XLS 1002 kb)

Rights and permissions

Reprints and Permissions

About this article

Cite this article

Zhu, J., Sanborn, J., Benz, S. et al. The UCSC Cancer Genomics Browser. Nat Methods 6, 239–240 (2009). https://doi.org/10.1038/nmeth0409-239

Download citation

  • Issue Date:

  • DOI: https://doi.org/10.1038/nmeth0409-239

This article is cited by

Search

Advanced search

Quick links

Nature Briefing

Sign up for the Nature Briefing newsletter — what matters in science, free to your inbox daily.

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