NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE76120 Query DataSets for GSE76120
Status Public on Apr 07, 2016
Title Transcriptional regulators compete with nucleosomes post-replication
Organism Drosophila melanogaster
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Every nucleosome across the genome must be disrupted and reformed when the replication fork passes, but how chromatin organization is re-established following replication is unknown. To address this problem, we have developed Mapping In vivo Nascent Chromatin with EdU and sequencing (MINCE-seq) to characterize the genome-wide location of nucleosomes and other chromatin proteins behind replication forks at high temporal and spatial resolution. We find that the characteristic chromatin landscape at Drosophila promoters and enhancers is lost upon replication. The most conspicuous changes are at promoters that have high levels of RNA polymerase II (RNAPII) stalling and DNA accessibility and show specific enrichment for the BRM remodeler. Enhancer chromatin is also disrupted during replication, suggesting a role for transcription factor (TF) competition in nucleosome re-establishment. Thus, the characteristic nucleosome landscape emerges from a uniformly packaged genome by the action of TFs, RNAPII and remodelers minutes after replication fork passage.
 
Overall design Using MINCE-seq, we mapped the newly replicated and maturing chromatin landscape at promoters and enhancers. There are 24 samples, 12 input-pulldown pairs. Three of these pairs are biological replicates.
 
Contributor(s) Ramachandran S, Henikoff S
Citation(s) 27062929
Submission date Dec 17, 2015
Last update date Dec 30, 2018
Contact name Jorja Henikoff
E-mail jorja@fhcrc.org
Phone 206-667-4850
Organization name Fred Hutchinson Cancer Research Center
Department Basic Sciences
Lab Henikoff
Street address 1100 Fairview AV N, A1-162
City Seattle
State/province WA
ZIP/Postal code 98109-1024
Country USA
 
Platforms (1)
GPL17275 Illumina HiSeq 2500 (Drosophila melanogaster)
Samples (24)
GSM1974508 BG3_rep1_input_(2015-01-13.1,2015-03-20.1)
GSM1974509 BG3_rep1_pd_(2015-01-13.2)
GSM1974510 BG3_rep2_input_(2015-01-13.3,2015-03-20.3)
Relations
BioProject PRJNA306358
SRA SRP067519

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
GSE76120_RAW.tar 3.1 Gb (http)(custom) TAR (of BED, WIG)
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap