NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE134297 Query DataSets for GSE134297
Status Public on Jun 01, 2020
Title Multiple roles of H2A.Z in regulating promoter chromatin architecture in human cells (Mnase-seq & ChIP-seq)
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary We employed an MNase-Transcription Start Site Sequence Capture method to map and determine the accessibility of all nucleosomes, including those that contain H2A.Z, at high coverage for all human Pol II promoters. We uncovered unexpected features of nucleosomal organization in epithelial cells and following transition to a mesenchymal and malignant state. In contrast to the prevailing model, we observe many different types of active and inactive promoter structures that differ in their nucleosome organization and sensitivity to MNase digestion. Further, we found that H2A.Z has an important role in the assembly of repressed promoters into an inaccessible state. Finally, we uncovered a new promoter type in which a stable H2A.Z nucleosome occupies the TSS of an active promoter.
 
Overall design Nucleosome mapping via Mnase-seq and parallel ChIP-seq of H2A.Z in MCF10A and MCF10A-CA1a cells
 
Contributor(s) Dennis J, Cole L, Kurscheid S, Tremethick D
Citation(s) 33953180
Submission date Jul 15, 2019
Last update date Nov 07, 2023
Contact name LAUREN A COLE
E-mail(s) LC13G@MY.FSU.EDU
Phone 8506458573
Organization name FLORIDA STATE UNIVERSITY
Street address 319 STADIUM DR
City TALLAHASSEE
State/province Florida
ZIP/Postal code 32304
Country USA
 
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (28)
GSM3941584 A_H2AZ_H_r1_R1
GSM3941585 A_H2AZ_H_r2_R1
GSM3941586 A_H2AZ_L_r1_R1
This SubSeries is part of SuperSeries:
GSE134299 Multiple roles of H2A.Z in regulating promoter chromatin architecture in human cells
Relations
BioProject PRJNA554664
SRA SRP214664

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
GSE134297_combined_H_A_H2AZ_centers_seqcap_targets_w60s10_scg3_copy.mat10.txt.gz 6.2 Mb (ftp)(http) TXT
GSE134297_combined_H_A_Inp_centers_seqcap_targets_w60s10_scg3_copy.mat10.txt.gz 6.1 Mb (ftp)(http) TXT
GSE134297_combined_H_CA1a_H2AZ_centers_seqcap_targets_w60s10_scg3_copy.mat10.txt.gz 8.1 Mb (ftp)(http) TXT
GSE134297_combined_H_CA1a_Inp_centers_seqcap_targets_w60s10_scg3_copy.mat10.txt.gz 5.4 Mb (ftp)(http) TXT
GSE134297_combined_H_TGFb_H2AZ_centers_seqcap_targets_w60s10_scg3_copy.mat10.txt.gz 6.7 Mb (ftp)(http) TXT
GSE134297_combined_H_TGFb_Inp_centers_seqcap_targets_w60s10_scg3_copy.mat10.txt.gz 6.1 Mb (ftp)(http) TXT
GSE134297_combined_H_shH2AZ_Inp_centers_seqcap_targets_w60s10_scg3_copy.mat10.txt.gz 5.9 Mb (ftp)(http) TXT
GSE134297_combined_L_A_H2AZ_centers_seqcap_targets_w60s10_scg3_copy.mat10.txt.gz 4.1 Mb (ftp)(http) TXT
GSE134297_combined_L_A_Inp_centers_seqcap_targets_w60s10_scg3_copy.mat10.txt.gz 4.3 Mb (ftp)(http) TXT
GSE134297_combined_L_CA1a_H2AZ_centers_seqcap_targets_w60s10_scg3_copy.mat10.txt.gz 4.1 Mb (ftp)(http) TXT
GSE134297_combined_L_CA1a_Inp_centers_seqcap_targets_w60s10_scg3_copy.mat10.txt.gz 4.6 Mb (ftp)(http) TXT
GSE134297_combined_L_TGFb_H2AZ_centers_seqcap_targets_w60s10_scg3_copy.mat10.txt.gz 3.6 Mb (ftp)(http) TXT
GSE134297_combined_L_TGFb_Inp_centers_seqcap_targets_w60s10_scg3_copy.mat10.txt.gz 3.8 Mb (ftp)(http) TXT
GSE134297_combined_L_shH2AZ_Inp_centers_seqcap_targets_w60s10_scg3_copy.mat10.txt.gz 5.0 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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