The Human Epigenome Browser at Washington University

Journal name:
Nature Methods
Volume:
8,
Pages:
989–990
Year published:
DOI:
doi:10.1038/nmeth.1772
Published online

To the Editor:

Advances in next-generation sequencing have reshaped the landscape of genomic and epigenomic research. Large consortia such as the Encyclopedia of DNA Elements, the Roadmap Epigenomics Mapping Consortium and The Cancer Genome Atlas have generated tens of thousands of sequencing-based genome-wide datasets, creating a reference and resource for the scientific community. Small groups of researchers now can rapidly obtain huge volumes of genomic data, which need to be placed in the context of the consortium data for comparison. These data are often accompanied by rich metadata describing the sample and experiment, which is critical for their interpretation. Visualizing, navigating and interpreting such data in a meaningful way is a daunting challenge1.

References

  1. Nielsen, C.B., Cantor, M., Dubchak, I. & Wang, T. Nat. Methods 7, S5S15 (2010).
  2. Bernstein, B.E. et al. Nat. Biotechnol. 28, 10451048 (2010).
  3. Zhu, J. et al. Nat. Methods 6, 239240 (2009).
  4. Bernstein, B.E. et al. Cell 125, 315326 (2006).
  5. Kent, W.J. et al. Bioinformatics 26, 22042207 (2010).

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Author information

Affiliations

  1. Department of Genetics, Center for Genome Sciences and Systems Biology, Washington University School of Medicine, St. Louis, Missouri, USA.

    • Xin Zhou,
    • Brett Maricque,
    • Mingchao Xie,
    • Daofeng Li,
    • Vasavi Sundaram,
    • Eric A Martin,
    • Brian C Koebbe &
    • Ting Wang
  2. British Columbia Cancer Agency, Canada's Michael Smith Genome Sciences Centre, Vancouver, British Columbia, Canada.

    • Cydney Nielsen &
    • Martin Hirst
  3. Department of Biochemistry and Molecular Biology, Norris Comprehensive Cancer Center, University of Southern California, Los Angeles, California, USA.

    • Peggy Farnham
  4. Center for Biomolecular Science and Engineering, University of California Santa Cruz, Santa Cruz, California, USA.

    • Robert M Kuhn,
    • Jingchun Zhu,
    • W James Kent &
    • David Haussler
  5. Brain Tumor Research Center, Department of Neurosurgery, Helen Diller Family Comprehensive Cancer Center, University of California San Francisco, Santa Cruz, California, USA.

    • Ivan Smirnov &
    • Joseph F Costello
  6. Howard Hughes Medical Institute, Santa Cruz, California, USA.

    • David Haussler
  7. Department of Psychiatry, Washington University School of Medicine, St. Louis, Missouri, USA.

    • Pamela A F Madden

Competing financial interests

The authors declare no competing financial interests.

Corresponding authors

Correspondence to:

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Supplementary information

PDF files

  1. Supplementary Text and Figures (3.2M)

    Supplementary Figures 1–7, Supplementary Notes, Supplementary Methods, Supplementary Protocol.

Additional data