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 siCTL, 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
38080042
Reads aligned (%)
91.7
Duplicates removed (%)
3.6
Number of peaks
2282 (qval < 1E-05)

hg38

Number of total reads
38080042
Reads aligned (%)
93.9
Duplicates removed (%)
2.2
Number of peaks
2095 (qval < 1E-05)

Base call quality data from DBCLS SRA