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For hg38
BigWig
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Peak-call (q < 1E-20)
For hg19
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
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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)
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Sequence Read Archive
DBCLS SRA
NCBI SRA
ENA
Antigen: DNase-Seq
wikigenes
PDBj
CellType: SW 480
ATCC
MeSH
RIKEN BRC
Variation
TogoVar
SRX2370615
GSM2400298: DNase-seq from SW480 (ENCLB090JSJ); Homo sapiens; DNase-Hypersensitivity
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
DNase-seq
Antigen
DNase-Seq
Cell type
Cell type Class
Digestive tract
Cell type
SW 480
Primary Tissue
unresolved
Tissue Diagnosis
unresolved
Attributes by original data submitter
Sample
dev stage
adult
cell line
SW480
sex
male
sample type
immortalized cell line
donor ID
ENCDO499CXJ
age
50 year
lab
John Stamatoyannopoulos, UW
Sequenced DNA Library
library_strategy
DNase-Hypersensitivity
library_source
GENOMIC
library_selection
DNase
library_construction_protocol
other: https://www.encodeproject.org/documents/926174f5-d14c-4e77-bc52-5517b56daac0/@@download/attachment/Culturedcells_SOP_nuclei_DNase_crosslink_RNA_V1.pdf
Sequencing Platform
instrument_model
Illumina HiSeq 2500
Where can I get the processing logs?
Read processing pipeline
log
hg38
Number of total reads
199269866
Reads aligned (%)
74.1
Duplicates removed (%)
32.5
Number of peaks
97824 (qval < 1E-05)
hg19
Number of total reads
199269866
Reads aligned (%)
73.6
Duplicates removed (%)
32.8
Number of peaks
97289 (qval < 1E-05)
Base call quality data from
DBCLS SRA