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 type
breast cancer
type
IP
condition
MockE2
antibody
ERα (HC-20) antibodies (sc-543. Santa Cruz Biotechnology)
geo_loc_name
missing
collection_date
missing

Sequenced DNA Library

library_name
GSM6433417
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were crosslinked in 1% formaldehyde in DMEM for 10 min at RT. Next, glycine was added to a final concentration of 0.125 M and cells were incubated for 5 min at RT to stop the fixation. After two washes with ice-cold PBS, cells were harvested by gently scrapping on ice and centrifuged at 3,000 x g for 5 min. Cell pellets were stored at 80ºC until use. Chromatin preparation and ChIP experiments were performed with the ChIP-IT High Sensitivity Kit (Active Motif) according to manufacturer's protocol.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
36472160
Reads aligned (%)
97.2
Duplicates removed (%)
4.3
Number of peaks
2685 (qval < 1E-05)

hg19

Number of total reads
36472160
Reads aligned (%)
96.5
Duplicates removed (%)
5.8
Number of peaks
2759 (qval < 1E-05)

Base call quality data from DBCLS SRA