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
MCF7
cell line
MCF7
cell description
beast cancer cell line
chip antibody or biotin-streptavidin pulldown of blrp-tagged proteins
Santa Cruz Biotech, SC-543
treatment
shCTL, 1hr treatment with 100nM E2

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 or by streptavidin magnet beads pull-down. 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
19875951
Reads aligned (%)
82.8
Duplicates removed (%)
12.5
Number of peaks
3311 (qval < 1E-05)

hg38

Number of total reads
19875951
Reads aligned (%)
84.5
Duplicates removed (%)
12.0
Number of peaks
3446 (qval < 1E-05)

Base call quality data from DBCLS SRA