Population scale mapping of transposable element diversity reveals links to gene regulation and epigenomic variation

@inproceedings{Stuart2016PopulationSM,
  title={Population scale mapping of transposable element diversity reveals links to gene regulation and epigenomic variation},
  author={Tim Stuart and Steven R Eichten and Jonathan Cahn and Yuliya V. Karpievitch and Justin O. Borevitz and Ryan Lister},
  booktitle={eLife},
  year={2016}
}
Variation in the presence or absence of transposable elements (TEs) is a major source of genetic variation between individuals. Here, we identified 23,095 TE presence/absence variants between 216 Arabidopsis accessions. Most TE variants were rare, and we find these rare variants associated with local extremes of gene expression and DNA methylation levels within the population. Of the common alleles identified, two thirds were not in linkage disequilibrium with nearby SNPs, implicating these… CONTINUE READING

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