NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM7657178 Query DataSets for GSM7657178
Status Public on Jul 22, 2023
Title AT3_IRF-2
Sample type SRA
 
Source name AT-3
Organism Mus musculus
Characteristics cell line: AT-3
cell type: Breast Cancer
treatment: IFNg stimulation and immunoprecipitation with anti-Irf1
Extracted molecule genomic DNA
Extraction protocol Following stimulation, cross linked chromatin was sonicated followed by immunoprecipitation with anti-Irf1 antibody. Chromatin was reverse crosslinked and DNA isolated and sequenced.
Sequencing libraries were constructed using the Illumina Nextera DNA Sample prep kit.
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina NextSeq 500
 
Data processing Illumina Casava1.8.2 software used for basecalling.
Reads were trimmed for adaptor sequence using Ngmerge, then mapped to the mm10 genome with bowtie2
Peaks were called with Macs2 with respective INPUT files
Assembly: mm10
Supplementary files format and content: Peak files called with macs2
 
Submission date Jul 21, 2023
Last update date Jul 22, 2023
Contact name Kevin C sek
E-mail(s) kevin.sek@petermac.org
Phone 0432960331
Organization name Peter MacCallum Cancer Centre
Department Cancer Immunology
Lab Beavis Lab
Street address 305 Grattan Street
City Melbourne
State/province VIC
ZIP/Postal code 3000
Country Australia
 
Platform ID GPL19057
Series (2)
GSE237972 A novel CRISPR/Cas9 screening platform identifies an IRF1-SOCS1-mediated negative feedback loop that limits CXCL9 expression and anti-tumor immunity (IRF1 ChIP-Seq)
GSE237974 A novel CRISPR/Cas9 screening platform identifies an IRF1-SOCS1-mediated negative feedback loop that limits CXCL9 expression and anti-tumor immunity
Relations
BioSample SAMN36679582
SRA SRX21126703

Supplementary file Size Download File type/resource
GSM7657178_1-4_peaks.narrowPeak.gz 102.6 Kb (ftp)(http) NARROWPEAK
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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