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Install and launch IGV before selecting data to visualize
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)
Error connecting to IGV?
Analyze
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)
Download
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)
Link Out
Sequence Read Archive
DBCLS SRA
NCBI SRA
ENA
Antigen: Input control
wikigenes
PDBj
CellType: MCF-7
ATCC
MeSH
RIKEN BRC
Variation
TogoVar
SRX1787687
GSM2171865: jc969 MCF7 P6 input; 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
MCF-7
Primary Tissue
Breast
Site of Extraction
Pleura
Tissue Diagnosis
Adenocarcinoma
Attributes by original data submitter
Sample
source_name
MCF7 breast cancer cell line
cell line
MCF7
chip antibody
Input
cell type
asynchonous cells
treatment
No treatment
Sequenced DNA Library
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIPseq, Schmidt et al, 2009. PMID: 19275951 After amplification, DNA was extracted using QIAgen MinElute gel extraction kit.
Sequencing Platform
instrument_model
Illumina Genome Analyzer II
Where can I get the processing logs?
Read processing pipeline
log
hg38
Number of total reads
155150286
Reads aligned (%)
94.6
Duplicates removed (%)
6.0
Number of peaks
15324 (qval < 1E-05)
hg19
Number of total reads
155150286
Reads aligned (%)
93.6
Duplicates removed (%)
7.6
Number of peaks
15981 (qval < 1E-05)
Base call quality data from
DBCLS SRA