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For hg38
BigWig
Peak-call (q < 1E-05)
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For hg19
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
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For hg38
Colocalization
Target Genes (TSS ± 1kb)
Target Genes (TSS ± 5kb)
Target Genes (TSS ± 10kb)
For hg19
Colocalization
Target Genes (TSS ± 1kb)
Target Genes (TSS ± 5kb)
Target Genes (TSS ± 10kb)
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For hg38
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
For hg19
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
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Sequence Read Archive
DBCLS SRA
NCBI SRA
ENA
Antigen: Input control
wikigenes
PDBj
CellType: MDA-MB-231
ATCC
MeSH
RIKEN BRC
Variation
TogoVar
SRX3546811
GSM2918280: jc2835 MDA-MB-231-ERb Input Full 24 hrs Dox 3 hrs 1nM LY500307; Homo sapiens; ChIP-Seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
Input control
Antigen
Input control
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_Input_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
None
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
Where can I get the processing logs?
Read processing pipeline
log
hg38
Number of total reads
31687687
Reads aligned (%)
29.3
Duplicates removed (%)
1.4
Number of peaks
332 (qval < 1E-05)
hg19
Number of total reads
31687687
Reads aligned (%)
29.1
Duplicates removed (%)
2.5
Number of peaks
523 (qval < 1E-05)
Base call quality data from
DBCLS SRA