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 cells with PS deletion
treatments
Estradiol 1 hr
antibody
sc-8002 and ab32063
cell type
MCF7 cells with PS deletion

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP-seq, ERa bound regions were pull down using antibody. 5C, chromatin interactions were detected by 5C Libraries were prepared using standard ChIP-seq library protocol For 5C, Set of forward and reverse oligos with T7 and T3 adaptors were anneled to 3C libraies. The ligated oligos were amplified and sequenced on illumina Hiseq 2500 platform

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
6335518
Reads aligned (%)
91.9
Duplicates removed (%)
4.9
Number of peaks
6794 (qval < 1E-05)

hg38

Number of total reads
6335518
Reads aligned (%)
93.0
Duplicates removed (%)
4.3
Number of peaks
6719 (qval < 1E-05)

Base call quality data from DBCLS SRA