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Sample GSM6783758

Query DataSets for GSM6783758

Status

Public on Dec 04, 2022

Title

DNase-seq from suppressor macrophage (ENCLB040XRV)

Sample type

SRA

Source name

Homo sapiens male adult (21 years) suppressor macrophage primary cell

Organism

Homo sapiens

Characteristics

cell_type: suppressor macrophage
biomaterial_type: primary cell
description: control_4h
biosample encode accession: ENCBS012PFZ (SAMN18512653)
Sex: male
dev stage: adult
age: 21 year
donor_id: ENCDO733YAB
lab: John Stamatoyannopoulos, UW
source: Shelly Heimfeld
link: ENCBS012PFZ at ENCODE; https://www.encodeproject.org/ENCBS012PFZ/
link: Derived from ENCODE donor ENCDO733YAB; https://www.encodeproject.org/ENCDO733YAB/

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 HiSeq 2500

Description

https://www.encodeproject.org/experiments/ENCSR325GNM/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR325GNM
assay title: DNase-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB040XRV
instrument models: Illumina HiSeq 2500,Illumina HiSeq 4000,Illumina NextSeq 500

Data processing

See GSM*_README.txt supplementary file linked below

Submission date

Dec 03, 2022

Last update date

Jan 20, 2023

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

GPL16791

Series (1)

GSE220031

DNase-seq from suppressor macrophage (ENCSR325GNM)

Relations

BioSample

SAMN18512653

SRA

SRX18486494

Named Annotation

GSM6783758_ENCFF080RYA_read-depth_normalized_signal_GRCh38.bigWig

Supplementary file	Size	Download	File type/resource
GSM6783758_ENCFF013BHZ_footprints_GRCh38.bigBed	3.7 Mb	(ftp)(http)	BIGBED
GSM6783758_ENCFF080RYA_read-depth_normalized_signal_GRCh38.bigWig	683.1 Mb	(ftp)(http)	BIGWIG
GSM6783758_ENCFF097RGS_peaks_GRCh38.bed.gz	2.0 Mb	(ftp)(http)	BED
GSM6783758_ENCFF205YLA_peaks_GRCh38.bigBed	3.0 Mb	(ftp)(http)	BIGBED
GSM6783758_ENCFF231OPZ_FDR_cut_rate_GRCh38.bigBed	321.0 Mb	(ftp)(http)	BIGBED
GSM6783758_ENCFF493NCS_FDR_cut_rate_GRCh38.bed.gz	314.8 Mb	(ftp)(http)	BED
GSM6783758_ENCFF619TQP_peaks_GRCh38.bed.gz	1.4 Mb	(ftp)(http)	BED
GSM6783758_ENCFF693TCM_footprints_GRCh38.bed.gz	2.7 Mb	(ftp)(http)	BED
GSM6783758_ENCFF694WTS_peaks_GRCh38.starch	1.5 Mb	(ftp)(http)	STARCH
GSM6783758_ENCFF815IJL_peaks_GRCh38.bigBed	2.2 Mb	(ftp)(http)	BIGBED
GSM6783758_ENCLB040XRV_README.txt.gz	1.1 Kb	(ftp)(http)	TXT
SRA Run Selector
Raw data are available in SRA
Processed data provided as supplementary file