Comparative analysis of epigenomes offers new opportunities to understand cellular differentiation, mutation effects and disease processes. But the scale and heterogeneity of epigenetic data present numerous computational challenges.
This is a preview of subscription content, access via your institution
Relevant articles
Open Access articles citing this article.
-
Pash 3.0: A versatile software package for read mapping and integrative analysis of genomic and epigenomic variation using massively parallel DNA sequencing
BMC Bioinformatics Open Access 23 November 2010
Access options
Subscribe to this journal
Receive 12 print issues and online access
$209.00 per year
only $17.42 per issue
Buy this article
- Purchase on Springer Link
- Instant access to full article PDF
Prices may be subject to local taxes which are calculated during checkout
References
Birney, E. et al. Nature 447, 799–816 (2007).
Barski, A. et al. Cell 129, 823–837 (2007).
Heintzman, N.D. et al. Nat. Genet. 39, 311–318 (2007).
Mikkelsen, T.S. et al. Nature 448, 553–560 (2007).
Ernst, J. & Kellis, M. Nat. Biotechnol. 28, 817–825 (2010).
Bernstein, B.E. et al. Nat. Biotechnol. 28, 1045–1048 (2010).
Harris, R.A. et al. Nat. Biotechnol. 28, 1097–1105 (2010)
Kouzarides, T. Cell 128, 693–705 (2007).
Levenson, J.M. et al. J. Biol. Chem. 281, 15763–15773 (2006).
Reik, W. Nature 447, 425–432 (2007).
Rakyan, V.K. et al. Genome Res. 20, 434–439 (2010).
Bernstein, B.E. et al. Cell 120, 169–181 (2005).
Lamb, J. et al. Science 313, 1929–1935 (2006).
Slack, J.M. Nat. Rev. Genet 3, 889–895 (2002).
Waddington, C.H. The Strategy of the Genes: A Discussion of Some Aspects of Theoretical Biology (Allen & Unwin, London, 1957).
Bernstein, B.E. et al. Cell 128, 669–681 (2007).
van Arensbergen, J. et al. Genome Res. 20, 722–732 (2010).
Ridley, M. Evolution and Classification: the Reformation of Cladism (Longman, London UK, 1989).
Hennig, W. Phylogenetic Systematics (University of Illinois Press, Urbana, Illinois, 1966).
Meaburn, E.L. et al. Epigenetics 5, 578–582 (2010).
Schalkwyk, L.C. et al. Am. J. Hum. Genet. 86, 196–212 (2010).
Tycko, B. Am. J. Hum. Genet. 86, 109–112 (2010).
Cahan, P. et al. Nat. Genet. 41, 430–437 (2009).
Tony Hey, S.T. & Tolle, K. (eds). The Fourth Paradigm: Data-Intensive Scientific Discovery (Microsoft Research, Seattle, 2009).
Wang, X. et al. Nat. Biotechnol. 23, 1099–1103 (2005).
Mesirov, J.P. Science 327, 415–416 (2010).
McKenna, A. et al. Genome Res. 20, 1297–1303 (2010).
Xi, Y. & Li, W. BMC Bioinformatics 10, 232 (2009).
Rosenbloom, K.R. et al. Nucleic Acids Res. 38, D620–D625 (2010).
Goecks, J. et al. Genome Biol. 11, R86 (2010).
Bock, C. et al. Methods Mol. Biol. 628, 275–296 (2010).
Author information
Authors and Affiliations
Corresponding author
Ethics declarations
Competing interests
The author is the founder of and owns shares in IP Genesis, Inc., a company that commercializes academically developed software for genomic and epigenomic research.
Rights and permissions
About this article
Cite this article
Milosavljevic, A. Putting epigenome comparison into practice. Nat Biotechnol 28, 1053–1056 (2010). https://doi.org/10.1038/nbt1010-1053
Published:
Issue Date:
DOI: https://doi.org/10.1038/nbt1010-1053
This article is cited by
-
Epigenetics in breast cancer: what's new?
Breast Cancer Research (2011)
-
Pash 3.0: A versatile software package for read mapping and integrative analysis of genomic and epigenomic variation using massively parallel DNA sequencing
BMC Bioinformatics (2010)