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GEO accession:
Sample GSM2400446
Query DataSets for GSM2400446
Status
Public on Dec 07, 2016
Title
DNase-seq from MN1 (ENCLB347XWH)
Sample type
SRA
Source name
Mus musculus strain B6NCrl MN1 immortalized cell line
Organism
Mus musculus
Characteristics
line: MN1
biomaterial_type: immortalized cell line
biosample encode accession: ENCBS861BIB (SAMN06044924)
dev stage: unknown
Sex: not collected
age: unknown
lab: John Stamatoyannopoulos, UW
link: ENCBS861BIB at ENCODE;
https://www.encodeproject.org/ENCBS861BIB/
link: Derived from ENCODE donor ENCDO956IXV;
https://www.encodeproject.org/ENCDO956IXV/
link: ENCODE dbxrefs Cellosaurus CVCL_U508;
http://web.expasy.org/cellosaurus/CVCL_U508
Extracted molecule
genomic DNA
Extraction protocol
other:
https://www.encodeproject.org/documents/926174f5-d14c-4e77-bc52-5517b56daac0/@@download/attachment/Culturedcells_SOP_nuclei_DNase_crosslink_RNA_V1.pdf
Library strategy
DNase-Hypersensitivity
Library source
genomic
Library selection
DNAse
Instrument model
Illumina NextSeq 500
Description
https://www.encodeproject.org/experiments/ENCSR732IZK/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR732IZK
assay title: DNase-seq
assembly: mm10
encode release date: 2016-07-15
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB347XWH
Data processing
See GSM*_README.txt supplementary file linked below
Submission date
Nov 22, 2016
Last update date
May 15, 2019
Contact name
ENCODE DCC
E-mail(s)
encode-help@lists.stanford.edu
Organization name
ENCODE DCC
Street address
300 Pasteur Dr
City
Stanford
State/province
CA
ZIP/Postal code
94305-5120
Country
USA
Platform ID
GPL19057
Series (1)
GSE90388
DNase-seq from MN1 (ENCSR732IZK)
Relations
BioSample
SAMN06044924
SRA
SRX2370742
Named Annotation
GSM2400446_ENCFF854IVT_hotspots_mm10.bed.gz
Named Annotation
GSM2400446_ENCFF502DZZ_peaks_mm10.bed.gz
Named Annotation
GSM2400446_ENCFF590ZTG_signal_of_unique_reads_mm10.bigWig
Supplementary file
Size
Download
File type/resource
GSM2400446_ENCFF502DZZ_peaks_mm10.bed.gz
1.5 Mb
(ftp)
(http)
BED
GSM2400446_ENCFF551FCR_peaks_mm10.bigBed
2.1 Mb
(ftp)
(http)
BIGBED
GSM2400446_ENCFF590ZTG_signal_of_unique_reads_mm10.bigWig
577.4 Mb
(ftp)
(http)
BIGWIG
GSM2400446_ENCFF684ZHR_hotspots_mm10.bigBed
2.6 Mb
(ftp)
(http)
BIGBED
GSM2400446_ENCFF854IVT_hotspots_mm10.bed.gz
1.8 Mb
(ftp)
(http)
BED
GSM2400446_ENCLB347XWH_README.txt.gz
704 b
(ftp)
(http)
TXT
SRA Run Selector
Raw data are available in SRA
Processed data provided as supplementary file
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