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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)
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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: Naive T cells
ATCC
MeSH
RIKEN BRC
SRX6809272
GSM4064142: ATAC-seq DEX 2; Mus musculus; ATAC-seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
ATAC-Seq
Antigen
ATAC-Seq
Cell type
Cell type Class
Blood
Cell type
Naive T cells
NA
NA
Attributes by original data submitter
Sample
source_name
Naïve CD8 T cells
cell type
Naive CD8 T cells
surface marker
CD8+CD25-CD62LhiCD44low
treatment
Perinatal DEX treated
Sequenced DNA Library
library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
Genomic DNAs were extracted by DNA Clean & Concentrator (Zymo). ATAC-seq libraries were constructed with 50K cells from each condition following Omni-ATAC protocol (Illumina FC-121-1031(Corces et al., 2017))
Sequencing Platform
instrument_model
NextSeq 500
Where can I get the processing logs?
Read processing pipeline
log
mm10
Number of total reads
28369310
Reads aligned (%)
94.6
Duplicates removed (%)
9.7
Number of peaks
13199 (qval < 1E-05)
mm9
Number of total reads
28369310
Reads aligned (%)
94.4
Duplicates removed (%)
9.7
Number of peaks
13211 (qval < 1E-05)
Base call quality data from
DBCLS SRA