|
| Status |
Public on Oct 12, 2020 |
| Title |
CWRU004243 |
| Sample type |
SRA |
| |
|
| Source name |
Treatment: CD2, Donor: N005, Time: 24hrs
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: CD8 T cells
sample_date: 2016-12-20
time_in_hours: 24
treatment: CD2
donor: N005
|
| Growth protocol |
in vivo
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA was extracted from PBMCs using Rneasy Plus Micro Kit from QIAGEN
RNA libraries were prepared for sequencing using the Nextera XT Library Prep Kit and Nextera XT Index Kit v2 Set A.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
NextSeq 550 |
| |
|
| Data processing |
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence using skewer v0.2.2, then mapped to GRCh38 whole genome using Hisat2 v2.0.5
Read summarization was performed by the program featureCounts v1.5.0-p2 as part of the SubRead package.
Genome_build: GRCh38
Supplementary_files_format_and_content: Matrix in CSV format containing raw read counts
|
| |
|
| Submission date |
Jul 17, 2020 |
| Last update date |
Oct 12, 2020 |
| Contact name |
Mark Cameron |
| E-mail(s) |
mjc230@case.edu
|
| Organization name |
Case Western Reserve University
|
| Department |
Population and Quantitative Health Sciences
|
| Lab |
Cameron
|
| Street address |
10900 Euclid Ave
|
| City |
Cleveland |
| State/province |
OH |
| ZIP/Postal code |
44106 |
| Country |
USA |
| |
|
| Platform ID |
GPL21697 |
| Series (1) |
| GSE154644 |
CX3CL1 and IL-15 Promote CD8 T Cell Chemoattraction in HIV and in Atherosclerosis |
|
| Relations |
| BioSample |
SAMN15568639 |
| SRA |
SRX8755978 |
