Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K9me3

Cell type

Cell type Class
Breast
Cell type
SK-BR-3
Primary Tissue
Breast
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
SKBR3 cells, H3K9me3 ChIP
cell line
SKBR3
cell type
Breast cancer cell line
treatment
Control
chip antibody
H3K9me3 (Abcam, ab8898)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. ChIP-seq libraries were prepared for sequencing using standard Illumina protocols.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
65925607
Reads aligned (%)
95.9
Duplicates removed (%)
8.4
Number of peaks
4236 (qval < 1E-05)

hg19

Number of total reads
65925607
Reads aligned (%)
93.3
Duplicates removed (%)
13.1
Number of peaks
3179 (qval < 1E-05)

Base call quality data from DBCLS SRA