Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K27me3

Cell type

Cell type Class
Prostate
Cell type
LNCAP
Primary Tissue
Prostate
Tissue Diagnosis
Carcinoma

Attributes by original data submitter

Sample

source_name
abl_DMSO treated
cell line
LNCaP-abl (abl)
cell types
castration resitant prostate cancer cells
cell phenotype
AR-positive, EZH2 inhibitor-sensitive
passages
61-64
treated with
vehicle (DMSO)
chip antibody
H3K27 trimethylation (Cell Signaling, C36B11, #9733S) and H2Av (Active Motif 39715)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Prostate cancer cells were crosslinked with 1% formaldehyde and lysed in RIPA buffer with 0.3 M NaCl. ChIP DNA was purified using PCR Purification Kit (Qiagen) and then quantified by Quant-iTTM dsDNA HS Assay Kit (Invitrogen). ChIP-Seq libraries were prepared using ThruPLEX-FD Prep Kit (Rubicon Genomics) according to the manufacturer's protocol.

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
35147318
Reads aligned (%)
95.4
Duplicates removed (%)
12.1
Number of peaks
1220 (qval < 1E-05)

hg19

Number of total reads
35147318
Reads aligned (%)
94.6
Duplicates removed (%)
13.7
Number of peaks
1029 (qval < 1E-05)

Base call quality data from DBCLS SRA