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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: RNA polymerase II
wikigenes
PDBj
CellType: MCF-7
ATCC
MeSH
RIKEN BRC
Variation
TogoVar
SRX384482
GSM1276020: Pol II ChIP-seq UVB+1H; Homo sapiens; ChIP-Seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
RNA polymerase
Antigen
RNA polymerase II
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
breast cancer cells
cell line
MCF-7
passages
10 – 20
treatment
UVB irradiated
antibody
RNA Polymerase II ChIP (sc-224x)
Sequenced DNA Library
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Standard ChIP protocol Illumina HiSeq 2000 platform, according to manufacturer's protocol
Sequencing Platform
instrument_model
Illumina HiSeq 2000
Where can I get the processing logs?
Read processing pipeline
log
hg38
Number of total reads
192543872
Reads aligned (%)
88.7
Duplicates removed (%)
24.9
Number of peaks
26019 (qval < 1E-05)
hg19
Number of total reads
192543872
Reads aligned (%)
88.2
Duplicates removed (%)
25.9
Number of peaks
25847 (qval < 1E-05)
Base call quality data from
DBCLS SRA