Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
ESR1

Cell type

Cell type Class
Uterus
Cell type
Ishikawa
Primary Tissue
Uterus
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
Endometrioid adenocarcinoma
cell line
Ishikawa D538G ESR1 clone 2
genotype
D538G ESR1
treatment
10nM E2
time
1 hr
chip antibody
Anti-FLAG (Sigma-Aldrich M2, lot# SLBX2256) antibody that recognizes FLAG tag on ESR1

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Fixation was performed by treating cells with 1% formaldehyde for 10 minutes at room temperature. The cross-linking reaction was stopped with the addition of glycine to a final concentration of 125 mM. Cells were then washed with cold PBS and harvested via cell scraping in Farnham lysis buffer supplemented with protease inhibitors. Chromatin immunoprecipitation was performed as previously described (Reddy et al. Genome Research 2009) with an Anti-FLAG (Sigma-Aldrich M2) antibody that recognizes a FLAG tag on ESR1.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
23028215
Reads aligned (%)
78.4
Duplicates removed (%)
11.0
Number of peaks
2688 (qval < 1E-05)

hg38

Number of total reads
23028215
Reads aligned (%)
82.2
Duplicates removed (%)
7.8
Number of peaks
2811 (qval < 1E-05)

Base call quality data from DBCLS SRA