Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
ZMYND8

Cell type

Cell type Class
Prostate
Cell type
DU 145
Primary Tissue
Prostate
Tissue Diagnosis
Carcinoma

Attributes by original data submitter

Sample

source_name
DU145 cells, untreated, ZMYND8 ChIP
cell line
DU145
cell type
prostate cancer cell line
tissue derivation
prostate; derived from brain metastatic site
treatment
None
chip antibody
ZMYND8/RACK7 (Bethyl, A310-739A, lot A310-739A-1)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
DU145 prostate cells were cross-linked with 1% formaldehyde at room temperature for 10 min and then lysed and sonicated to fragment genomic DNA sizes to 200-500 bp. Chromatin samples were incubated with specific antibodies overnight at 4℃. The protein-DNA complexes were immobilized on protein A/G beads. The bound fractions were washed with low salt, high salt, LiCI wash buffer and TE buffer. Reverse-crosslinking of the eluted DNA were carried out at 67℃ for 8 hours. After RNase A and protease K digestion, DNA fraction was purified using PCR purification kit. ChIP DNA libraries were prepared for sequencing using standard Illumina protocols.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
3191149
Reads aligned (%)
79.8
Duplicates removed (%)
8.9
Number of peaks
592 (qval < 1E-05)

hg38

Number of total reads
3191149
Reads aligned (%)
80.3
Duplicates removed (%)
8.7
Number of peaks
571 (qval < 1E-05)

Base call quality data from DBCLS SRA