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  Genetic determinants and epigenetic effects of pioneer-factor occupancy

Donaghey, J., Thakurela, S., Charlton, J., Chen, J. S., Smith, Z. D., Gu, H., et al. (2018). Genetic determinants and epigenetic effects of pioneer-factor occupancy. Nature Genetics, 50(2), 250-258. doi:10.1038/s41588-017-0034-3.

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Item Permalink: http://hdl.handle.net/21.11116/0000-0000-63BB-E Version Permalink: http://hdl.handle.net/21.11116/0000-0004-5AD3-9
Genre: Journal Article

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 Creators:
Donaghey, Julie , Author
Thakurela, Sudhir , Author
Charlton, Jocelyn1, Author              
Chen, Jennifer S. , Author
Smith, Zachary D. , Author
Gu, Hongcang, Author
Pop, Ramona, Author
Clement, Kendell , Author
Stamenova, Elena K. , Author
Karnik, Rahul , Author
Kelley, David R. , Author
Gifford, Casey A. , Author
Cacchiarelli, Davide , Author
Rinn, John L., Author
Gnirke, Andreas , Author
Ziller, Michael J. , Author
Meissner, Alexander1, 2, 3, Author              
Affiliations:
1Dept. of Genome Regulation (Head: Alexander Meissner), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_2379694              
2Broad Institute of MIT and Harvard, Cambridge, MA, USA, ou_persistent22              
3Department of Stem Cell and Regenerative Biology, Harvard University, Cambridge, MA, USA, ou_persistent22              

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 Abstract: Transcription factors (TFs) direct developmental transitions by binding to target DNA sequences, influencing gene expression and establishing complex gene-regultory networks. To systematically determine the molecular components that enable or constrain TF activity, we investigated the genomic occupancy of FOXA2, GATA4 and OCT4 in several cell types. Despite their classification as pioneer factors, all three TFs exhibit cell-type-specific binding, even when supraphysiologically and ectopically expressed. However, FOXA2 and GATA4 can be distinguished by low enrichment at loci that are highly occupied by these factors in alternative cell types. We find that expression of additional cofactors increases enrichment at a subset of these sites. Finally, FOXA2 occupancy and changes to DNA accessibility can occur in G1-arrested cells, but subsequent loss of DNA methylation requires DNA replication.

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Language(s): eng - English
 Dates: 2016-12-202017-12-042018-01-222018-02
 Publication Status: Published in print
 Pages: 13
 Publishing info: -
 Table of Contents: -
 Rev. Type: -
 Identifiers: DOI: 10.1038/s41588-017-0034-3
PMID: 29358654
 Degree: -

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Title: Nature Genetics
  Other : Nature Genet.
Source Genre: Journal
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Publ. Info: New York, NY : Nature America, Inc.
Pages: 9 Volume / Issue: 50 (2) Sequence Number: - Start / End Page: 250 - 258 Identifier: ISSN: 1061-4036
CoNE: https://pure.mpg.de/cone/journals/resource/954925598609