Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
HDAC2

Cell type

Cell type Class
Blood
Cell type
Erythroid progenitors
NA
NA

Attributes by original data submitter

Sample

source_name
Erythroid progenitors
cell type
Erythroid progenitors derived from human CD34+ bone marrow cells
antibody
anti-HDAC2
antibody manufacturer
Abcam
antibody catalog number
ab12169

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were fixed in 1% formaldehyde for 15 min at room temperature. Crosslinking reaction was extinguished by adding glycine to 125 mM. Cells were washed three times in PBS, 0.5% lgepal CA-630, 1 mM phenylmethanesulfonyl fluoride (PMSF). Cell pellets were snap frozen on dry ice and stored at -80°C ChIP-Seq was performed by Active Motif (Carlsbad, CA). Chromatin (30 ug) from vehicle or ACY-957 treated cells was immunoprecipitated with antibodies against Gata-2 (20 ul, sc-9008, Santa Cruz, Dallas, TX), HDAC1 (20 ug, ab7028, Abcam, Cambridge, MA), or HDAC2 (4 ug, ab12169, Abcam). ChIP DNA, as well as a control sample composed of equal amounts of input DNA from each treatment group, was processed into Illumina libraries using standard procedures, and libraries were sequenced on HiSeq 2000.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
41961064
Reads aligned (%)
87.4
Duplicates removed (%)
8.7
Number of peaks
4189 (qval < 1E-05)

hg38

Number of total reads
41961064
Reads aligned (%)
89.4
Duplicates removed (%)
7.4
Number of peaks
4334 (qval < 1E-05)

Base call quality data from DBCLS SRA