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Series GSE99515 Query DataSets for GSE99515
Status Public on Nov 16, 2017
Title YY1 is a structural regulator of enhancer-promoter loops [4C-Seq]
Organism Mus musculus
Experiment type Other
Summary There is considerable evidence that chromosome structure plays important roles in gene control, but we have limited understanding of the proteins that contribute to structural interactions between gene promoters and their enhancer elements. Large DNA loops that encompass genes and their regulatory elements depend on CTCF-CTCF interactions, but most enhancer-promoter interactions do not depend on this structural protein. Here we show that the transcription factor Yin Yang 1 (YY1) contributes to enhancer-promoter structural interactions in a manner analogous to DNA interactions mediated by CTCF. YY1 binds to active enhancers and promoter-proximal elements in all cells examined. YY1 forms dimers that can facilitate DNA interactions. Deletion of YY1 binding sites or depletion of YY1 can disrupt enhancer-promoter looping and normal gene expression. We propose that YY1-mediated enhancer-promoter interactions are a general feature of mammalian gene control.
 
Overall design 4C-Seq (Chromosome conformation capture) in mouse embryonic stem cells
 
Contributor(s) Weintraub AS, Li CH, Zamudio A, Sigova AA, Hannett NM, Day DS, Abraham BJ, Cohen M, Nabet B, Buckley DL, Guo YE, Hnisz D, Jaenisch R, Bradner JE, Gray NS, Young RA
Citation(s) 29224777
Submission date May 31, 2017
Last update date Jul 25, 2021
Contact name Richard A Young
E-mail(s) young_computation@wi.mit.edu
Phone 617-258-5219
Organization name Whitehead Institute for Biomedical Research
Lab Young Lab
Street address 9 Cambridge Center
City Cambridge
State/province MA
ZIP/Postal code 02142
Country USA
 
Platforms (1)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (18)
GSM2645350 DB7938357_Etv4_Prom_B3_mES_situ_rep1
GSM2645351 DB7938357_Etv4_Prom_B3_mES_situ_rep2
GSM2645352 DB7938357_Etv4_Prom_B3_mES_situ_rep3
This SubSeries is part of SuperSeries:
GSE99521 YY1 is a structural regulator of enhancer-promoter loops
Relations
BioProject PRJNA388685
SRA SRP108373

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE99515_RAW.tar 2.1 Mb (http)(custom) TAR (of WIG)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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