|
| Status |
Public on Apr 22, 2021 |
| Title |
ATAC-seq from foreskin keratinocyte (ENCLB126RNA) |
| Sample type |
SRA |
| |
|
| Source name |
Homo sapiens male newborn (2-4 days) foreskin keratinocyte primary cell treated with 1.2 mM calcium for 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 5.5
biosample encode accession: ENCBS194HUS (SAMN18814273)
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: 5; duration_units: day;
health state: Healthy
passage number: 2
link: ENCBS194HUS at ENCODE; https://www.encodeproject.org/ENCBS194HUS/
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/ENCSR649RCV/
***************
biological replicate number: 2
technical replicate number: 3
description: ATAC-seq on primary keratinocytes in day 5.5 of differentiation
experiment encode accession: ENCSR649RCV
assay title: ATAC-seq
assembly: GRCh38
encode release date: 2017-10-10
lab: Will Greenleaf, Stanford
library encode accession: ENCLB126RNA
|
| 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) |
| GSE172873 |
ATAC-seq from foreskin keratinocyte (ENCSR649RCV) |
|
| Relations |
| Reanalyzed by |
GSE181392 |
| BioSample |
SAMN18814273 |
| SRA |
SRX10661358 |
