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Sample GSM7290872 Query DataSets for GSM7290872
Status Public on Oct 19, 2023
Title HA_parental_H4K91Q_Input
Sample type SRA
 
Source name mESCs
Organism Mus musculus
Characteristics cell type: mouse embryonic stem cells
genotype: Stably expressing PiggyBAC_H4K91Q_3HA
chip antibody: none
Extracted molecule genomic DNA
Extraction protocol Cells were fixed with 1% paraformaldehyde for 5 minutes with gentle rotation and then quenched with 125 mM glycine for 5 minutes. After cell lysis, chromatin was sonicated using a Covaris E220. Genomic DNA was isolated after the immunoprecipitation of sonicated chromatin.
Libraries were generated using NEBNext Ultra II kits.
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina NextSeq 500
 
Data processing ChIP-seq reads were aligned using Rsubread’s align method and predicted fragment lengths were calculated by the ChIPQC R Bioconductor package. Normalized, fragment extended signal bigWigs were created using the rtracklayer R Bioconductor package. Peak calls were made using the MACS2 software.
Assembly: mm10
Supplementary files format and content: bigwig files normalized to read depth
Supplementary files format and content: narrowPeak files generated by MACS2
 
Submission date May 03, 2023
Last update date Oct 19, 2023
Contact name Douglas Barrows
E-mail(s) dbarrows@rockefeller.edu
Phone 7749940981
Organization name Rockefeller University
Street address 1230 York Ave
City New York
State/province NY
ZIP/Postal code 10065
Country USA
 
Platform ID GPL19057
Series (2)
GSE231566 Altered chromatin occupancy of patient-associated H4 mutants misregulate neuronal differentiation [ChIP-seq]
GSE231567 Altered chromatin occupancy of patient-associated H4 mutants misregulate neuronal differentiation
Relations
BioSample SAMN34568132
SRA SRX20209094

Supplementary file Size Download File type/resource
GSM7290872_Sorted_mESC_H4K91Q3HA_InputNormalised.bw 325.0 Mb (ftp)(http) BW
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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