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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: ATAC-Seq
wikigenes
PDBj
CellType: CD34 Hematopoietic stem cells
ATCC
MeSH
RIKEN BRC
Variation
TogoVar
SRX4152343
GSM3170964: CC100-C1-2-69 [CC100 scATAC-seq]; Homo sapiens; ATAC-seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
ATAC-Seq
Antigen
ATAC-Seq
Cell type
Cell type Class
Blood
Cell type
CD34 Hematopoietic stem cells
NA
NA
Attributes by original data submitter
Sample
source_name
CD34+ hematopoietic cells
celltype
primary hematopoietic cells
supplemented with
CC100
Sequenced DNA Library
library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
NP40 lysis Single cell ATAC-seq (C1 Fluidigm)
Sequencing Platform
instrument_model
NextSeq 500
Where can I get the processing logs?
Read processing pipeline
log
hg38
Number of total reads
964524
Reads aligned (%)
97.1
Duplicates removed (%)
81.3
Number of peaks
1 (qval < 1E-05)
hg19
Number of total reads
964524
Reads aligned (%)
96.3
Duplicates removed (%)
82.3
Number of peaks
2 (qval < 1E-05)
Base call quality data from
DBCLS SRA