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Series GSE133300 Query DataSets for GSE133300
Status Public on Jun 26, 2019
Title Sufficiency analysis of estrogen responsive enhancers using synthetic activators
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Multiple regulatory regions bound by the same transcription factor have been shown to simultaneously control a single gene’s expression. However, it remains unclear how these regulatory regions combine to regulate transcription. Here we test the sufficiency of promoter-distal estrogen receptor α (ER)-binding sites (ERBS) for activating gene expression by recruiting synthetic activators in the absence of estrogens. Targeting either dCas9-VP16(10x) or dCas9-p300(core) to ERBS induces H3K27ac and activates nearby expression in a manner similar to an estrogen induction, with dCas9-VP16(10x) acting as a stronger activator. The sufficiency of individual ERBS is highly correlated with their necessity, indicating an inherent activation potential. By targeting ERBS combinations, we found that ERBS work independently to control gene expression. The sufficiency results contrast necessity assays that show synergy between these ERBS, suggesting that synergy occurs between ERBS in terms of activator recruitment, whereas directly recruiting activators leads to independent effects on gene expression.
 
Overall design ChIP-seq to analyze binding of synthetic transcription factors as well as changes in H3K27ac
 
Contributor(s) Ginley-Hidinger M, Gertz J
Citation(s) 31570515
Submission date Jun 25, 2019
Last update date Oct 08, 2019
Contact name Jason Gertz
E-mail(s) jay.gertz@hci.utah.edu
Organization name University of Utah
Lab Gertz
Street address 1950 Cir of Hope Dr
City Salt Lake City
State/province UT
ZIP/Postal code 84112
Country USA
 
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (47)
GSM3905442 h3k27ac_p300_adjacent_r1: H3K27ac P300 Adjacent rep1
GSM3905443 h3k27ac_p300_adjacent_r2: H3K27ac P300 Adjacent rep2
GSM3905444 h3k27ac_p300_il1rn: H3K27ac P300 Control/IL1RN rep1
Relations
BioProject PRJNA551016
SRA SRP212078

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
GSE133300_RAW.tar 6.0 Gb (http)(custom) TAR (of BW, NARROWPEAK)
GSE133300_normalizedCounts.txt.gz 6.4 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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