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Sample GSM6783765

Query DataSets for GSM6783765

Status

Public on Dec 04, 2022

Title

DNase-seq from CD4-positive, alpha-beta T cell (ENCLB093XCH)

Sample type

SRA

Source name

Homo sapiens female adult (39 years) CD4-positive, alpha-beta T primary cell treated with Interferon alpha-2 for 1 hour

Organism

Homo sapiens

Characteristics

cell_type: CD4-positive, alpha-beta T cell
biomaterial_type: primary cell
description: IFNa_1h
biosample encode accession: ENCBS110WWY (SAMN18813990)
Sex: female
dev stage: adult
age: 39 year
donor_id: ENCDO222BBW
lab: John Stamatoyannopoulos, UW
source: Shelly Heimfeld
treatments: treatment_term_id: UniProtKB:P01563; treatment_term_name: Interferon alpha-2; treatment_type: protein; duration: 1; duration_units: hour;
link: ENCBS110WWY at ENCODE; https://www.encodeproject.org/ENCBS110WWY/
link: Derived from ENCODE donor ENCDO222BBW; https://www.encodeproject.org/ENCDO222BBW/

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 4000

Description

https://www.encodeproject.org/experiments/ENCSR941MHZ/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR941MHZ
assay title: DNase-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB093XCH

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

GPL20301

Series (1)

GSE220037

DNase-seq from CD4-positive, alpha-beta T cell (ENCSR941MHZ)

Relations

BioSample

SAMN18813990

SRA

SRX18486501

Named Annotation

GSM6783765_ENCFF442BTV_read-depth_normalized_signal_GRCh38.bigWig

Supplementary file	Size	Download	File type/resource
GSM6783765_ENCFF152WTJ_peaks_GRCh38.bed.gz	1.1 Mb	(ftp)(http)	BED
GSM6783765_ENCFF380UKL_FDR_cut_rate_GRCh38.bed.gz	310.8 Mb	(ftp)(http)	BED
GSM6783765_ENCFF415IRI_peaks_GRCh38.bigBed	1.7 Mb	(ftp)(http)	BIGBED
GSM6783765_ENCFF422HLS_footprints_GRCh38.bigBed	2.8 Mb	(ftp)(http)	BIGBED
GSM6783765_ENCFF442BTV_read-depth_normalized_signal_GRCh38.bigWig	636.5 Mb	(ftp)(http)	BIGWIG
GSM6783765_ENCFF481ZPT_peaks_GRCh38.bigBed	2.2 Mb	(ftp)(http)	BIGBED
GSM6783765_ENCFF547MXP_FDR_cut_rate_GRCh38.bigBed	310.9 Mb	(ftp)(http)	BIGBED
GSM6783765_ENCFF604WIV_footprints_GRCh38.bed.gz	2.2 Mb	(ftp)(http)	BED
GSM6783765_ENCFF787EJF_peaks_GRCh38.starch	1.2 Mb	(ftp)(http)	STARCH
GSM6783765_ENCFF981MZX_peaks_GRCh38.bed.gz	1.4 Mb	(ftp)(http)	BED
GSM6783765_ENCLB093XCH_README.txt.gz	1.1 Kb	(ftp)(http)	TXT
SRA Run Selector
Raw data are available in SRA
Processed data provided as supplementary file