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Sample GSM5704014 Query DataSets for GSM5704014
Status Public on Oct 05, 2023
Title Input DNA
Sample type SRA
 
Source name DAMI cell
Organism Homo sapiens
Characteristics cell line: DAMI cell
cell type: leukemic cells
disease state: MPN/AML
chip antibody: None
Growth protocol DAMI cells (ATCC, CRL-9792) were cultured in RPMI 1640 medium (Corning) supplemented with 10% fetal bovine serum (Sigma).
Extracted molecule genomic DNA
Extraction protocol Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody.
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina HiSeq 2500
 
Data processing Bowtie2.2.1 was used for mapping the paired end reads to the hg19 human reference genome. Default parameters were used.
Samtools0.1.19 was used to convert, sort and index SAM files.
MACS2.1.1 was used to call peaks.
Genome_build: hg19
Supplementary_files_format_and_content: Peak files were obtained from MACS2 in bed format
 
Submission date Nov 25, 2021
Last update date Oct 05, 2023
Contact name Linda M.S. Resar
Organization name Johns Hopkins University
Department Department of Medicine / Division of Hematology
Street address 720 Rutland Avenue
City BALTIMORE
State/province Maryland
ZIP/Postal code 21210
Country USA
 
Platform ID GPL16791
Series (2)
GSE189569 HMGA1 Chromatin Regulators Drive MPN Progression [ChIP-Seq]
GSE189570 HMGA1 Chromatin Regulators Drive MPN Progression
Relations
BioSample SAMN23440789
SRA SRX13228293

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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