Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K27ac

Cell type

Cell type Class
Others
Cell type
JMSU1
Primary Tissue
Bladder
Tissue Diagnosis
Carcinoma

Attributes by original data submitter

Sample

source_name
bladder cancer cells
cell type
JMSU-1
chip antibody
H3K27Ac (Abcam, 4729, lot GR286678-2)
genotype
RXRA S427F

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Crosslinking and ChIP were performed as described for adherent cells in the ENCODE experiment summary for ENCSR000BJW (https://www.encodeproject.org/experiments/ENCSR000BJW/) . Chromatin was sonicated using the Diagenode Pico Bioruptor. DNA-protein complexes were precipitated with antibodies against RXRA (PP-K8508-00 R&D Systems) and H3K27Ac (ab4729 Abcam).

Sequencing Platform

instrument_model
Illumina HiSeq 3000

hg38

Number of total reads
18954502
Reads aligned (%)
96.9
Duplicates removed (%)
13.3
Number of peaks
26579 (qval < 1E-05)

hg19

Number of total reads
18954502
Reads aligned (%)
96.4
Duplicates removed (%)
14.0
Number of peaks
26591 (qval < 1E-05)

Base call quality data from DBCLS SRA