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Series GSE38066 Query DataSets for GSE38066
Status Public on Sep 13, 2012
Title Epigenomic profiling of enhancers identifies orphan nuclear receptors NR2F1 and NR2F2 as novel regulators of human neural crest.
Organism Gallus gallus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Combining an in vitro hNCC differentiation protocol with epigenomic profiling, we provide the first whole-genome characterization of cis-regulatory elements in this highly relevant cell type. With this data at hand, we have characterized the chromatin state and dynamics of all human gene promoters during the course of NCC in vitro differentiation. Most importantly, we have identified a large cohort of active and NCC-specific enhancers, which we showed to be functionally relevant in vivo, in the context of embryonic development. Finally, through sequence analysis of the identified NCC enhancers, we uncovered the orphan nuclear receptors NR2F1 and NR2F2 as novel hNCC transcriptional regulators both in vitro and in vivo.
 
Overall design Genome-wide analysis of H3K27ac in chicken neural crest cells (NCC) obtained from stage 11-14 or stage 20 embryos
 
Contributor(s) Rada-Iglesias A, Wysocka J
Citation(s) 22981823
Submission date May 21, 2012
Last update date May 15, 2019
Contact name Alvaro Rada
E-mail(s) alvaror@stanford.edu
Organization name Stanford University
Department Chemical and Systems Biology
Lab Wysocka lab
Street address 269 Campus Drive, CCSR Building
City Stanford
State/province CA
ZIP/Postal code 94305
Country USA
 
Platforms (1)
GPL13797 Illumina Genome Analyzer IIx (Gallus gallus)
Samples (4)
GSM933347 Chicken_st11-14_NCC_H3K27ac
GSM933348 Chicken_st11-14_NCC_input
GSM933349 Chicken_st20_NCC_H3K27ac
Relations
BioProject PRJNA167180
SRA SRP013271

Download family Format
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Supplementary file Size Download File type/resource
GSE38066_RAW.tar 600.0 Mb (http)(custom) TAR (of BED)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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