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Sample GSM4646688 Query DataSets for GSM4646688
Status Public on Sep 30, 2020
Title H3K27me3 ChIP shctrl 2
Sample type SRA
 
Source name Pancreatic ductal adenocarcinoma
Organism Mus musculus
Characteristics cell line: NKC
treatment: shRNA control
Growth protocol NKC cells were cultured in DMEM supplemented with 10% FCS and 1% NEAA.
Extracted molecule genomic DNA
Extraction protocol Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody.
ChIP libraries were prepared for sequencing using standard Illumina protocols
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina HiSeq 2000
 
Description H3K27me3 ChIP shctrl 2
Data processing Raw reads were quality-checked using FastQC 
Alignment against mm9 mouse reference genome was done by using BOWTIE2 version 0.4
Peak calling was performed by MACS2 version 2.1.0
Diffbind (Bioconductor R package) was utilized for differential binding analysis
Genome_build: mm9
Supplementary_files_format_and_content: bigwig
 
Submission date Jun 30, 2020
Last update date Sep 30, 2020
Contact name SHILPA PATIL
E-mail(s) shilpapatil528@gmail.com
Organization name UNIVERSITY MEDICAL CENTER GOETTINGEN
Street address ROBERT KOCH STRASSE 40
City GOETTINGEN
State/province No further selection needed
ZIP/Postal code 37075
Country Germany
 
Platform ID GPL13112
Series (2)
GSE153537 EZH2-GATA6 axis in Pancreatic ductal adenocarcinoma [ChIP-Seq]
GSE153538 EZH2-GATA6 axis in Pancreatic ductal adenocarcinoma
Relations
BioSample SAMN15403438
SRA SRX8639422

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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