Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K9ac

Cell type

Cell type Class
Others
Cell type
Bladder cancer
NA
NA

Attributes by original data submitter

Sample

source_name
Primary bladder cancer
tissue
FFPE
antibody
H3K9ac (Abcam ab4441)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIPseq:ThruPLEX-FD kits (Rubicon Genomics) was used and 75 bp single-end reads were sequenced on a NextSeq 500 instrument (Illumina). For RNAseq: TruSeq RNA Sample Preparation Kit (Illumina) was used according to the manufacturer's instructions and 75 bp single-end reads were sequenced on an Illumina NextSeq 500 instrument.

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
68612255
Reads aligned (%)
76.7
Duplicates removed (%)
57.4
Number of peaks
947 (qval < 1E-05)

hg19

Number of total reads
68612255
Reads aligned (%)
76.3
Duplicates removed (%)
58.3
Number of peaks
943 (qval < 1E-05)

Base call quality data from DBCLS SRA