Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Epitope tags

Cell type

Cell type Class
Breast
Cell type
MDA-MB-231
Primary Tissue
Breast
Site of Extraction
Effusion, Pleural
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
MDA-MB-231-ERb_ERb_Full_24_hrs_Dox_3_hrs_1nM_LY500307
cell line
MDA-MB-231-ER-beta
cell type
Triple Negative Breast Cancer Cell Line
passages
20-25
treated with
10 nM LY500307 for 3 h
chip antibody
Flag (Sigma, M2)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Nuclear lysates were prepared and ER-beta bound chromatin was purified using the Flag-specific antibody. DNA was prepared for Illumina sequencing on the HiSeq 2500 using the ThruPLEX DNA-seq kit according to the manufacturer's instructions.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
26157167
Reads aligned (%)
30.5
Duplicates removed (%)
7.0
Number of peaks
1644 (qval < 1E-05)

hg19

Number of total reads
26157167
Reads aligned (%)
30.3
Duplicates removed (%)
8.0
Number of peaks
1773 (qval < 1E-05)

Base call quality data from DBCLS SRA