Ontology type: schema:ScholarlyArticle Open Access: True
2014-12
AUTHORSJason A. West, April Cook, Burak H. Alver, Matthias Stadtfeld, Aimee M. Deaton, Konrad Hochedlinger, Peter J. Park, Michael Y. Tolstorukov, Robert E. Kingston
ABSTRACTChromatin structure determines DNA accessibility. We compare nucleosome occupancy in mouse and human embryonic stem cells (ESCs), induced-pluripotent stem cells (iPSCs) and differentiated cell types using MNase-seq. To address variability inherent in this technique, we developed a bioinformatic approach to identify regions of difference (RoD) in nucleosome occupancy between pluripotent and somatic cells. Surprisingly, most chromatin remains unchanged; a majority of rearrangements appear to affect a single nucleosome. RoDs are enriched at genes and regulatory elements, including enhancers associated with pluripotency and differentiation. RoDs co-localize with binding sites of key developmental regulators, including the reprogramming factors Klf4, Oct4/Sox2 and c-Myc. Nucleosomal landscapes in ESC enhancers are extensively altered, exhibiting lower nucleosome occupancy in pluripotent cells than in somatic cells. Most changes are reset during reprogramming. We conclude that changes in nucleosome occupancy are a hallmark of cell differentiation and reprogramming and likely identify regulatory regions essential for these processes. More... »
PAGES4719
http://scigraph.springernature.com/pub.10.1038/ncomms5719
DOIhttp://dx.doi.org/10.1038/ncomms5719
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PUBMEDhttps://www.ncbi.nlm.nih.gov/pubmed/25158628
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JSON-LD is a popular format for linked data which is fully compatible with JSON.
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