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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: Splenocytes
ATCC
MeSH
RIKEN BRC
SRX8272862
GSM4519304: ATAC-seq N2WT51195-2; Mus musculus; ATAC-seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
ATAC-Seq
Antigen
ATAC-Seq
Cell type
Cell type Class
Spleen
Cell type
Splenocytes
NA
NA
Attributes by original data submitter
Sample
source_name
Spleenocytes
tissue
spleen
cell type
MZB
age
Adult 10-14 weeks old
strain
Mixed Background
genotype
WT
Sequenced DNA Library
library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
Nuclei were isolated from purified MZBs as described by Buenrostro et al (2013) ATAC-Seq (Buenrostro et al, 2013)
Sequencing Platform
instrument_model
Illumina HiSeq 2000
Where can I get the processing logs?
Read processing pipeline
log
mm10
Number of total reads
49511954
Reads aligned (%)
78.7
Duplicates removed (%)
44.5
Number of peaks
64464 (qval < 1E-05)
mm9
Number of total reads
49511954
Reads aligned (%)
78.6
Duplicates removed (%)
44.5
Number of peaks
64422 (qval < 1E-05)
Base call quality data from
DBCLS SRA