Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
ESR1

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
beast cancer cell line
cell line
MCF7
chip antibody
ERa
treatment
cells transfected with siNCAPG, and 1hr with 100nM E2, double crosslinked

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were crosslinked with 1% of formaldehyde or double-crosslinked with DSG first followed by 1% of formaldehyde, clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. The extracted ChIP DNA was ligated to specific adaptors of Truseq system from Illumina, according to the manufacturer’s instructions.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
16144928
Reads aligned (%)
67.2
Duplicates removed (%)
13.3
Number of peaks
6914 (qval < 1E-05)

hg38

Number of total reads
16144928
Reads aligned (%)
68.6
Duplicates removed (%)
12.2
Number of peaks
6804 (qval < 1E-05)

Base call quality data from DBCLS SRA