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Genome-wide identification of autosomal genes with allelic imbalance of chromatin state.

Publication ,  Journal Article
Savol, AJ; Wang, PI; Jeon, Y; Colognori, D; Yildirim, E; Pinter, SF; Payer, B; Lee, JT; Sadreyev, RI
Published in: PLoS One
2017

In mammals, monoallelic gene expression can result from X-chromosome inactivation, genomic imprinting, and random monoallelic expression (RMAE). Epigenetic regulation of RMAE is not fully understood. Here we analyze allelic imbalance in chromatin state of autosomal genes using ChIP-seq in a clonal cell line. We identify approximately 3.7% of autosomal genes that show significant differences between chromatin states of two alleles. Allelic regulation is represented among several functional gene categories including histones, chromatin modifiers, and multiple early developmental regulators. Most cases of allelic skew are produced by quantitative differences between two allelic chromatic states that belong to the same gross type (active, silent, or bivalent). Combinations of allelic states of different types are possible but less frequent. When different chromatin marks are skewed on the same gene, their skew is coordinated as a result of quantitative relationships between these marks on each individual allele. Finally, combination of allele-specific densities of chromatin marks is a quantitative predictor of allelic skew in gene expression.

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Published In

PLoS One

DOI

EISSN

1932-6203

Publication Date

2017

Volume

12

Issue

8

Start / End Page

e0182568

Location

United States

Related Subject Headings

  • Mice, 129 Strain
  • Mice
  • Male
  • Genomic Imprinting
  • Genome
  • General Science & Technology
  • Gene Expression
  • Fibroblasts
  • Female
  • Epigenesis, Genetic
 

Citation

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ICMJE
MLA
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Savol, A. J., Wang, P. I., Jeon, Y., Colognori, D., Yildirim, E., Pinter, S. F., … Sadreyev, R. I. (2017). Genome-wide identification of autosomal genes with allelic imbalance of chromatin state. PLoS One, 12(8), e0182568. https://doi.org/10.1371/journal.pone.0182568
Savol, Andrej J., Peggy I. Wang, Yesu Jeon, David Colognori, Eda Yildirim, Stefan F. Pinter, Bernhard Payer, Jeannie T. Lee, and Ruslan I. Sadreyev. “Genome-wide identification of autosomal genes with allelic imbalance of chromatin state.PLoS One 12, no. 8 (2017): e0182568. https://doi.org/10.1371/journal.pone.0182568.
Savol AJ, Wang PI, Jeon Y, Colognori D, Yildirim E, Pinter SF, et al. Genome-wide identification of autosomal genes with allelic imbalance of chromatin state. PLoS One. 2017;12(8):e0182568.
Savol, Andrej J., et al. “Genome-wide identification of autosomal genes with allelic imbalance of chromatin state.PLoS One, vol. 12, no. 8, 2017, p. e0182568. Pubmed, doi:10.1371/journal.pone.0182568.
Savol AJ, Wang PI, Jeon Y, Colognori D, Yildirim E, Pinter SF, Payer B, Lee JT, Sadreyev RI. Genome-wide identification of autosomal genes with allelic imbalance of chromatin state. PLoS One. 2017;12(8):e0182568.

Published In

PLoS One

DOI

EISSN

1932-6203

Publication Date

2017

Volume

12

Issue

8

Start / End Page

e0182568

Location

United States

Related Subject Headings

  • Mice, 129 Strain
  • Mice
  • Male
  • Genomic Imprinting
  • Genome
  • General Science & Technology
  • Gene Expression
  • Fibroblasts
  • Female
  • Epigenesis, Genetic