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
Ishikawa SID4x-dCas9-KRAB
antibody
ER alpha
grna treatment
Control
drug treatment
10 nM E2
growth conditions
charcoal-stripped RPMI
time point
8hr

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
20 million cells per ChIP were crosslinked in 1% formaldehyde for 10 minutes at room temperature. Crosslinking was stopped with 125 mM Glycine and nuclei were extracted. Chromatin was sonicated using an Epishear Probe Sonicator (Active Motif) for 3 minutes at 40% power. c-MYC (D3N8F) antibody (Cell Signaling Technology) was used for immunoprecipitation and an input sample for each cell line served as the control. Libraries were constructed using a standard Illumina library construction protocol.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
20771519
Reads aligned (%)
74.1
Duplicates removed (%)
8.0
Number of peaks
20024 (qval < 1E-05)

hg38

Number of total reads
20771519
Reads aligned (%)
76.6
Duplicates removed (%)
5.9
Number of peaks
19834 (qval < 1E-05)

Base call quality data from DBCLS SRA