|
| Status |
Public on Oct 16, 2022 |
| Title |
DNase-seq from stimulated activated naive CD8-positive, alpha-beta T cell (ENCLB510JDI) |
| Sample type |
SRA |
| |
|
| Source name |
Homo sapiens male adult (30 years) stimulated activated naive CD8-positive, alpha-beta T primary cell treated with anti-CD3 and anti-CD28 coated beads, 10 ng/mL Interleukin-2
|
| Organism |
Homo sapiens |
| Characteristics |
cell_type: stimulated activated naive CD8-positive, alpha-beta T cell
biomaterial_type: primary cell
biosample encode accession: ENCBS589RZO (SAMN30347871)
Sex: male
dev stage: adult
age: 30 year
donor_id: ENCDO166AGR
lab: Yijun Ruan, JAX
source: AllCells
treatments: treatment_term_name: anti-CD3 and anti-CD28 coated beads; treatment_type: antibody; treatment_term_id: UniProtKB:P60568; treatment_term_name: Interleukin-2; treatment_type: protein;
link: ENCBS589RZO at ENCODE; https://www.encodeproject.org/ENCBS589RZO/
link: Derived from ENCODE donor ENCDO166AGR; https://www.encodeproject.org/ENCDO166AGR/
|
| 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/ENCSR009MDC/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR009MDC
assay title: DNase-seq
assembly: GRCh38
encode release date: 2021-11-04
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB510JDI
|
| 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 |
CA |
| ZIP/Postal code |
94305-5120 |
| Country |
USA |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE215464 |
DNase-seq from stimulated activated naive CD8-positive, alpha-beta T cell (ENCSR009MDC) |
|
| Relations |
| BioSample |
SAMN30347871 |
| SRA |
SRX17911675 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM6637597_ENCFF015LIS_peaks_GRCh38.starch |
981.9 Kb |
(ftp)(http) |
STARCH |
| GSM6637597_ENCFF040POR_read-depth_normalized_signal_GRCh38.bigWig |
614.0 Mb |
(ftp)(http) |
BIGWIG |
| GSM6637597_ENCFF070HSO_footprints_GRCh38.bigBed |
3.0 Mb |
(ftp)(http) |
BIGBED |
| GSM6637597_ENCFF436BJC_footprints_GRCh38.bed.gz |
2.0 Mb |
(ftp)(http) |
BED |
| GSM6637597_ENCFF463WIA_peaks_GRCh38.bed.gz |
883.0 Kb |
(ftp)(http) |
BED |
| GSM6637597_ENCFF577MYH_FDR_cut_rate_GRCh38.bigBed |
258.5 Mb |
(ftp)(http) |
BIGBED |
| GSM6637597_ENCFF774MUM_peaks_GRCh38.bed.gz |
1.2 Mb |
(ftp)(http) |
BED |
| GSM6637597_ENCFF826VDY_peaks_GRCh38.bigBed |
1.7 Mb |
(ftp)(http) |
BIGBED |
| GSM6637597_ENCFF857JUM_peaks_GRCh38.bigBed |
2.4 Mb |
(ftp)(http) |
BIGBED |
| GSM6637597_ENCFF894ELV_FDR_cut_rate_GRCh38.bed.gz |
261.9 Mb |
(ftp)(http) |
BED |
| GSM6637597_ENCLB510JDI_README.txt.gz |
1.1 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
