Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K9me3

Cell type

Cell type Class
Breast
Cell type
T-47D
Primary Tissue
Breast
Tissue Diagnosis
Adenocarcinoma Ductal

Attributes by original data submitter

Sample

source_name
dormant bone metastatic (DBM) derivatives of T47D cells
transfection
shMSK1
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 indicated antibody Libraries for sequencing were prepared using NEBNext Ultra DNA Library Prep Kit for Illumina (E7370L) following the manufacturer's instructions.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
63004379
Reads aligned (%)
96.9
Duplicates removed (%)
5.5
Number of peaks
2858 (qval < 1E-05)

hg19

Number of total reads
63004379
Reads aligned (%)
95.2
Duplicates removed (%)
8.4
Number of peaks
2084 (qval < 1E-05)

Base call quality data from DBCLS SRA