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Sample GSM6637683

Query DataSets for GSM6637683

Status

Public on Oct 16, 2022

Title

DNase-seq from urinary bladder (ENCLB891AVL)

Sample type

SRA

Source name

Mus musculus strain B6CASTF1/J male (4 days) urinary bladder tissue

Organism

Mus musculus

Characteristics

tissue_type: urinary bladder
biomaterial_type: tissue
description: B6Cast F1 PND4 Male 05 urinary bladder for Altius Stam biobank
biosample encode accession: ENCBS844IWB (SAMN30348024)
Sex: male
dev stage: not collected
age: 4 day
donor_id: ENCDO509HIY
lab: Barbara Wold, Caltech
source: The Jackson Laboratory
link: ENCBS844IWB at ENCODE; https://www.encodeproject.org/ENCBS844IWB/
link: Derived from ENCODE donor ENCDO509HIY; https://www.encodeproject.org/ENCDO509HIY/

Extracted molecule

genomic DNA

Extraction protocol

extraction protocol: https://www.encodeproject.org/documents/980de32c-f7ec-4cd7-b736-61faf723c186/@@download/attachment/newnuclei_isolation_from_human_tissue-combined.pdf

Library strategy

DNase-Hypersensitivity

Library source

genomic

Library selection

DNAse

Instrument model

Illumina NovaSeq 6000

Description

https://www.encodeproject.org/experiments/ENCSR453OSR/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR453OSR
assay title: DNase-seq
assembly: mm10
encode release date: 2022-04-07
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB891AVL

Data processing

See GSM*_README.txt supplementary file linked below

Submission date

Oct 13, 2022

Last update date

Oct 17, 2022

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

ZIP/Postal code

94305-5120

Country

USA

Platform ID

GPL24247

Series (1)

GSE215521

DNase-seq from urinary bladder (ENCSR453OSR)

Relations

BioSample

SAMN30348024

SRA

SRX17911755

Supplementary file	Size	Download	File type/resource
GSM6637683_ENCFF321NCM_peaks_mm10.bed.gz	942.4 Kb	(ftp)(http)	BED
GSM6637683_ENCFF470LBY_peaks_mm10.bigBed	1.5 Mb	(ftp)(http)	BIGBED
GSM6637683_ENCFF505QUO_footprints_mm10.bigBed	2.0 Mb	(ftp)(http)	BIGBED
GSM6637683_ENCFF508ESX_peaks_mm10.bigBed	1.0 Mb	(ftp)(http)	BIGBED
GSM6637683_ENCFF518WVZ_peaks_mm10.bed.gz	581.4 Kb	(ftp)(http)	BED
GSM6637683_ENCFF526EAA_FDR_cut_rate_mm10.bed.gz	149.7 Mb	(ftp)(http)	BED
GSM6637683_ENCFF533PJK_read-depth_normalized_signal_mm10.bigWig	615.6 Mb	(ftp)(http)	BIGWIG
GSM6637683_ENCFF635ZST_peaks_mm10.starch	660.4 Kb	(ftp)(http)	STARCH
GSM6637683_ENCFF675JBB_FDR_cut_rate_mm10.bigBed	149.8 Mb	(ftp)(http)	BIGBED
GSM6637683_ENCFF783ZZD_footprints_mm10.bed.gz	1.4 Mb	(ftp)(http)	BED
GSM6637683_ENCLB891AVL_README.txt.gz	1.0 Kb	(ftp)(http)	TXT
SRA Run Selector
Raw data are available in SRA
Processed data provided as supplementary file