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Install and launch IGV before selecting data to visualize
For mm10
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
For mm9
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
Error connecting to IGV?
Analyze
For mm10
Colocalization
Target Genes (TSS ± 1kb)
Target Genes (TSS ± 5kb)
Target Genes (TSS ± 10kb)
For mm9
Colocalization
Target Genes (TSS ± 1kb)
Target Genes (TSS ± 5kb)
Target Genes (TSS ± 10kb)
Download
For mm10
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
For mm9
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: ATAC-Seq
wikigenes
PDBj
CellType: Unclassified
ATCC
MeSH
RIKEN BRC
SRX6963316
GSM4113821: control1; Mus musculus; ATAC-seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
ATAC-Seq
Antigen
ATAC-Seq
Cell type
Cell type Class
Unclassified
Cell type
Unclassified
NA
NA
Attributes by original data submitter
Sample
source_name
KP cells with Asf1a WT
cell type
KP tumor cells
strain
C57BL/6
tissue
In vitro cultured cell line
Sequenced DNA Library
library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
Directly sent cells to core for ATAC seq; Performed ChIP by using commercial available ChIP kit and then sent the purified DNA sample to the core for ChIP-seq The NYU Genome Technology Center constructed the libries followed their standard protocol
Sequencing Platform
instrument_model
Illumina HiSeq 4000
Where can I get the processing logs?
Read processing pipeline
log
mm10
Number of total reads
62837938
Reads aligned (%)
90.8
Duplicates removed (%)
37.2
Number of peaks
36292 (qval < 1E-05)
mm9
Number of total reads
62837938
Reads aligned (%)
90.7
Duplicates removed (%)
37.3
Number of peaks
36232 (qval < 1E-05)
Base call quality data from
DBCLS SRA