|
| Status |
Public on Dec 08, 2020 |
| Title |
Individual #14, EtOH, rep3 |
| Sample type |
SRA |
| |
|
| Source name |
PBMCs
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: peripheral blood mononuclear cells
agent: 0.1percent ethanol
time point: 24 h
|
| Treatment protocol |
treatment for 24 h with either 10 nM 1,25(OH)2D3 (Sigma-Aldrich) or solvent (0.1% EtOH)
|
| Growth protocol |
RPMI 1640 medium supplemented with 10% charcoal-depleted fetal calf serum, 2 mM L-glutamine, 0.1 mg/ml streptomycin and 100 U/ml penicillin and were at 37 °C in a humidified 95% air/5% CO2 incubator.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
extraction of total RNA using High Pure RNA Isolation kit (Roche)
rRNA-deplete cDNA library following NEB protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Quality control using "afterQC"
Read alignment using "kallisto"
Differential gene expression using "EdgeR"
Genome_build: hg38
Supplementary_files_format_and_content: relative abundance in Excel table
|
| |
|
| Submission date |
Aug 12, 2020 |
| Last update date |
Dec 08, 2020 |
| Contact name |
Carsten Carlberg |
| E-mail(s) |
[email protected], [email protected], [email protected]
|
| Phone |
+358-40-355-3062
|
| Organization name |
Polish Academy of Sciences
|
| Department |
Food Research
|
| Street address |
ul. J. Tuwima
|
| City |
Olsztyn |
| ZIP/Postal code |
10-748 |
| Country |
Poland |
| |
|
| Platform ID |
GPL18573 |
| Series (1) |
| GSE156124 |
Common and private vitamin D target genes of human primary immune cells: a personalized approach |
|
| Relations |
| BioSample |
SAMN15803738 |
| SRA |
SRX8934535 |
