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Research: Cytosine modifications modulate the chromatin architecture of transcriptional enhancers
- Elise A. Mahé,
- Thierry Madigou,
- Aurélien A. Sérandour,
- Maud Bizot,
- Stéphane Avner,
- Frédéric Chalmel,
- Gaëlle Palierne,
- Raphaël Métivier,
- and Gilles Salbert
Genome Res. June 2017 27: 947-958; Published in Advance April 10, 2017, doi:10.1101/gr.211466.116
..., and chromatin characteristics of enhancers bound by the pioneer transcription factors FOXA1, MEIS1, and PBX1 were interrogated. In a large fraction of the tested enhancers, inhibition of DNA methylation was associated with a significant increase in monomethylation of H3K4, a characteristic mark of enhancer...
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Research: Glucocorticoid receptor recruits to enhancers and drives activation by motif-directed binding
- Ian C. McDowell,
- Alejandro Barrera,
- Anthony M. D'Ippolito,
- Christopher M. Vockley,
- Linda K. Hong,
- Sarah M. Leichter,
- Luke C. Bartelt,
- William H. Majoros,
- Lingyun Song,
- Alexias Safi,
- D. Dewran Koçak,
- Charles A. Gersbach,
- Alexander J. Hartemink,
- Gregory E. Crawford,
- Barbara E. Engelhardt,
- and Timothy E. Reddy
Genome Res. September 2018 28: 1272-1284; Published in Advance August 10, 2018, doi:10.1101/gr.233346.117
...of distal target genes (Kleinjan and van Heyningen 2005). During differentiation, combinations of pioneer factors bind and prime the chromatin landscape for enhancer formation and, ultimately, cellular identity (Heinz et al. 2010; Heinz and Glass 2011). In addition to opening chromatin, certain pioneer...
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Research: Decoupling of evolutionary changes in transcription factor binding and gene expression in mammals
- Emily S. Wong,
- David Thybert,
- Bianca M. Schmitt,
- Klara Stefflova,
- Duncan T. Odom,
- and Paul Flicek
Genome Res. February 2015 25: 167-178; Published in Advance November 13, 2014, doi:10.1101/gr.177840.114
...across evolution. In contrast, the transcriptional output of FOXA1-dependent genes did not appear to deviate significantly from bulk genes across species. FOXA1 acts as a pioneer factor without which other TFs may not bind, establishing competence for gene expression (S#1;erandour et al. 2011). Its...
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