Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
RUNX1

Cell type

Cell type Class
Blood
Cell type
Hematopoietic Stem Cells
MeSH Description
Progenitor cells from which all blood cells derived. They are found primarily in the bone marrow and also in small numbers in the peripheral blood.

Attributes by original data submitter

Sample

source_name
Adult hematopoietic stem/progenitor cells (HSPCs)
tissue
Adult HSPCs (A0)
developmental stage/tissue
adult bone marrow
cell type
primary adult CD34+ HSPCs (A0)
chip antibody
RUNX1
chip antibody vendor
Abcam

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-seq analysis using the Illumina HiSeq2500, 10-20 ng of ChIP DNA was processed for library generation using the ChIP-seq Sample Preparation Kit (Illumina) following the manufacturer’s protocol. Raw ChIP-seq data were processed using the Illumina software pipeline. Only ChIP-seq reads that aligned to exactly one location in the reference human genome (UCSC, hg18) were retained for downstream data analysis.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
31916904
Reads aligned (%)
56.0
Duplicates removed (%)
42.2
Number of peaks
2111 (qval < 1E-05)

hg38

Number of total reads
31916904
Reads aligned (%)
57.9
Duplicates removed (%)
40.8
Number of peaks
2104 (qval < 1E-05)

Base call quality data from DBCLS SRA