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Sample GSM6638055

Query DataSets for GSM6638055

Status

Public on Oct 16, 2022

Title

DNase-seq from cerebellum (ENCLB044VXU)

Sample type

SRA

Source name

Mus musculus strain 5xFAD/CAST male (11-12 months) cerebellum tissue

Organism

Mus musculus

Characteristics

tissue_type: cerebellum
biomaterial_type: tissue
biosample encode accession: ENCBS989NWY (SAMN31260609)
Sex: male
dev stage: unknown
age: 11-12 month
donor_id: ENCDO996MUL
lab: Barbara Wold, Caltech
source: The Jackson Laboratory
link: ENCBS989NWY at ENCODE; https://www.encodeproject.org/ENCBS989NWY/
link: Derived from ENCODE donor ENCDO996MUL; https://www.encodeproject.org/ENCDO996MUL/

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/ENCSR336MBU/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR336MBU
assay title: DNase-seq
assembly: mm10
encode release date: 2022-09-29
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB044VXU

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)

GSE215707

DNase-seq from cerebellum (ENCSR336MBU)

Relations

BioSample

SAMN31260609

SRA

SRX17912050

Supplementary file	Size	Download	File type/resource
GSM6638055_ENCFF036CDP_peaks_mm10.bigBed	2.1 Mb	(ftp)(http)	BIGBED
GSM6638055_ENCFF335RBT_peaks_mm10.bed.gz	1.7 Mb	(ftp)(http)	BED
GSM6638055_ENCFF362HNH_peaks_mm10.bigBed	3.1 Mb	(ftp)(http)	BIGBED
GSM6638055_ENCFF368MHR_FDR_cut_rate_mm10.bigBed	343.6 Mb	(ftp)(http)	BIGBED
GSM6638055_ENCFF492IIA_FDR_cut_rate_mm10.bed.gz	350.3 Mb	(ftp)(http)	BED
GSM6638055_ENCFF591JJJ_peaks_mm10.bed.gz	1.1 Mb	(ftp)(http)	BED
GSM6638055_ENCFF670ZXL_peaks_mm10.starch	1.2 Mb	(ftp)(http)	STARCH
GSM6638055_ENCFF722EAO_footprints_mm10.bigBed	4.4 Mb	(ftp)(http)	BIGBED
GSM6638055_ENCFF791BWN_read-depth_normalized_signal_mm10.bigWig	568.2 Mb	(ftp)(http)	BIGWIG
GSM6638055_ENCFF945LZZ_footprints_mm10.bed.gz	3.4 Mb	(ftp)(http)	BED
GSM6638055_ENCLB044VXU_README.txt.gz	1.0 Kb	(ftp)(http)	TXT
SRA Run Selector
Raw data are available in SRA
Processed data provided as supplementary file