|
| Status |
Public on Jan 28, 2021 |
| Title |
bulkRNA_F033 |
| Sample type |
SRA |
| |
|
| Source name |
Human CD8+ blood cells from a nonsmoking adult
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Blood
smoker: no
|
| Treatment protocol |
Mononuclear layer was isolated directly from whole blood using density gradient centrifuagation with Histopaque-1077 Ficoll. Using antibody-coated magnetic beads, purified cell fractions were pelleted and frozen at -80C in Qiagen RLT buffer.
|
| Growth protocol |
Human whole blood was collected from smoking and nonsmoking adults
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from purified cell fractions using the AllPrep DNA/RNA/miRNA Universal Kit according to the manufacturer's instructions.
RNA from isolated CD8+ purified cell fractions were prepared using the TruSeq Stranded Total RNA Library Prep Gold (Illumina)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Aligned with STAR version 2.6.0c
Gene read counts obtained using featureCounts from the Subread package version 1.5.1 using release 27 of the GENCODE annotation
Gene read counts normalized using size factors from DESeq2 version 1.14.1
Genome_build: hg19
Supplementary_files_format_and_content: counts: 1st column = Gene symbol, 2nd column = Gene read counts normalized by DESeq2 size factor
|
| |
|
| Submission date |
Oct 15, 2019 |
| Last update date |
Jan 28, 2021 |
| Contact name |
Douglas A. Bell |
| E-mail(s) |
bell1@niehs.nih.gov
|
| Organization name |
National Institute of Environmental Health Sciences
|
| Department |
Immunity Inflammation and Disease Lab
|
| Street address |
PO Box 12233
|
| City |
Research Triangle Park |
| State/province |
NC |
| ZIP/Postal code |
27709 |
| Country |
USA |
| |
|
| Platform ID |
GPL18573 |
| Series (1) |
| GSE138851 |
Bulk RNA sequencing of CD8 T cell from smokers and nonsmokers |
|
| Relations |
| BioSample |
SAMN13031468 |
| SRA |
SRX6991941 |
