@article{Ercan01022011,
author = {Ercan, Sevinç and Lubling, Yaniv and Segal, Eran and Lieb, Jason D.}, 
title = {High nucleosome occupancy is encoded at X-linked gene promoters in C. elegans},
volume = {21}, 
number = {2}, 
pages = {237-244}, 
year = {2011}, 
doi = {10.1101/gr.115931.110}, 
abstract ={We mapped nucleosome occupancy by paired-end Illumina sequencing in C. elegans embryonic cells, adult somatic cells, and a mix of adult somatic and germ cells. In all three samples, the nucleosome occupancy of gene promoters on the X chromosome differed from autosomal promoters. While both X and autosomal promoters exhibit a typical nucleosome-depleted region upstream of transcript start sites and a well-positioned +1 nucleosome, X-linked gene promoters on average exhibit higher nucleosome occupancy relative to autosomal promoters. We show that the difference between X and autosomes does not depend on the somatic dosage compensation machinery. Instead, the chromatin difference at promoters is partly encoded by DNA sequence, because a model trained on nucleosome sequence preferences from S. cerevisiae in vitro data recapitulate nearly completely the experimentally observed difference between X and autosomal promoters. The model predictions also correlate very well with experimentally determined occupancy values genome-wide. The nucleosome occupancy differences observed on X promoters may bear on mechanisms of X chromosome dosage compensation in the soma, and chromosome-wide repression of X in the germline.}, 
URL = {http://genome.cshlp.org/content/21/2/237.abstract}, 
eprint = {http://genome.cshlp.org/content/21/2/237.full.pdf+html}, 
journal = {Genome Research} 
}