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Sample GSM5259118 Query DataSets for GSM5259118
Status Public on Apr 22, 2021
Title ATAC-seq from foreskin keratinocyte (ENCLB996QFW)
Sample type SRA
 
Source name Homo sapiens male newborn (2-4 days) foreskin keratinocyte primary cell treated with 1.2 mM calcium for 4.5 days
Organism Homo sapiens
Characteristics cell_type: foreskin keratinocyte
biomaterial_type: primary cell
description: Primary foreskin keratinocyte cells from a newborn healthy male donor, differentiated in 2D culture, day 5.0
biosample encode accession: ENCBS379WNC (SAMN18814277)
Sex: male
dev stage: newborn
age: 2-4 day
donor_id: ENCDO005EGE
lab: Paul Khavari, Stanford
source: Paul Khavari
treatments: treatment_term_id: CHEBI:86158; treatment_term_name: calcium; treatment_type: chemical; duration: 4.5; duration_units: day;
health state: Healthy
passage number: 2
link: ENCBS379WNC at ENCODE; https://www.encodeproject.org/ENCBS379WNC/
link: Derived from ENCODE donor ENCDO005EGE; https://www.encodeproject.org/ENCDO005EGE/
Extracted molecule genomic DNA
Extraction protocol general protocol: https://www.encodeproject.org/documents/6c6fb106-830f-4c72-83a9-634b7430f925/@@download/attachment/ggr.keratinocyte.greenleaf-lab.atac-seq.pdf
 
Library strategy ATAC-seq
Library source genomic
Library selection other
Instrument model Illumina HiSeq 4000
 
Description https://www.encodeproject.org/experiments/ENCSR939WVU/
***************
biological replicate number: 2
technical replicate number: 4
description: ATAC-seq on primary keratinocytes in day 5.0 of differentiation
experiment encode accession: ENCSR939WVU
assay title: ATAC-seq
assembly: GRCh38
encode release date: 2017-10-10
lab: Will Greenleaf, Stanford
library encode accession: ENCLB996QFW
Data processing See GSM*_README.txt supplementary file linked below
 
Submission date Apr 21, 2021
Last update date Aug 03, 2021
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 GPL20301
Series (1)
GSE172944 ATAC-seq from foreskin keratinocyte (ENCSR939WVU)
Relations
Reanalyzed by GSE181392
BioSample SAMN18814277
SRA SRX10661455

Supplementary file Size Download File type/resource
GSM5259118_ENCLB996QFW_README.txt.gz 1.6 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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