Genetic sources of population epigenomic variation

No abstract is available for this paper.

• Publication year

  2016

• Venue

  Nature reviews genetics

• Publication date

  2016-05-09

• Fields of study

  Biology, Medicine

• Identifiers
  DOI 10.1038/nrg.2016.45PMID 27156976
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

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• Epigenetic Regulation.

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