Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SMARCA4

Cell type

Cell type Class
Breast
Cell type
MCF-7
Primary Tissue
Breast
Site of Extraction
Pleura
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
breast cancer cells
cell line
MCF7
growth protocol
TamR
treatment
TamR cells were infected with JUN shRNA(sh9591)
growth medium
Full media
chip antibody
BRG1(Abcam, ab4081)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and protein-DNA complexes were isolated with antibody. The extracted ChIP DNA was ligated to specific adaptors using KAPA LTP Library Preparation Kit (KK8230) or KAPA Hyper Prep Kit (KK8504), according to the manufacturer's instructions.

Sequencing Platform

instrument_model
Illumina HiSeq 3000

hg19

Number of total reads
9559767
Reads aligned (%)
77.8
Duplicates removed (%)
18.1
Number of peaks
886 (qval < 1E-05)

hg38

Number of total reads
9559767
Reads aligned (%)
79.7
Duplicates removed (%)
17.0
Number of peaks
874 (qval < 1E-05)

Base call quality data from DBCLS SRA