Genome-wide nucleosome positioning during embryonic stem cell development View Full Text


Ontology type: schema:ScholarlyArticle     


Article Info

DATE

2012-11

AUTHORS

Vladimir B Teif, Yevhen Vainshtein, Maïwen Caudron-Herger, Jan-Philipp Mallm, Caroline Marth, Thomas Höfer, Karsten Rippe

ABSTRACT

We determined genome-wide nucleosome occupancies in mouse embryonic stem cells and their neural progenitor and embryonic fibroblast counterparts to assess features associated with nucleosome positioning during lineage commitment. Cell-type- and protein-specific binding preferences of transcription factors to sites with either low (Myc, Klf4 and Zfx) or high (Nanog, Oct4 and Sox2) nucleosome occupancy as well as complex patterns for CTCF were identified. Nucleosome-depleted regions around transcription start and transcription termination sites were broad and more pronounced for active genes, with distinct patterns for promoters classified according to CpG content or histone methylation marks. Throughout the genome, nucleosome occupancy was correlated with certain histone methylation or acetylation modifications. In addition, the average nucleosome repeat length increased during differentiation by 5-7 base pairs, with local variations for specific regions. Our results reveal regulatory mechanisms of cell differentiation that involve nucleosome repositioning. More... »

PAGES

1185

References to SciGraph publications

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  • Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1038/nsmb.2419

    DOI

    http://dx.doi.org/10.1038/nsmb.2419

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1011038243

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/23085715


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