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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: CD4+ T cells
ATCC
MeSH
RIKEN BRC
SRX7545760
GSM4261096: KO3 Tcon; 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
CD4+ T cells
NA
NA
Attributes by original data submitter
Sample
source_name
CD4+ Foxp3GFP– Tconv
tissue
CD4+ Foxp3GFP- Tconv
genotype
Lrrc32+ 70k enhancer KO
Sequenced DNA Library
library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
1e5 cell nuclei were processed as previously described (Buenrostro Nat Methods 2013; Sadiyah et al., 2019) PCR amplification with Nextera primers Buenrostro 2013
Sequencing Platform
instrument_model
Illumina HiSeq 2500
Where can I get the processing logs?
Read processing pipeline
log
mm10
Number of total reads
21115531
Reads aligned (%)
93.0
Duplicates removed (%)
47.6
Number of peaks
17087 (qval < 1E-05)
mm9
Number of total reads
21115531
Reads aligned (%)
92.9
Duplicates removed (%)
47.8
Number of peaks
17114 (qval < 1E-05)
Base call quality data from
DBCLS SRA