|
| Status |
Public on Jun 20, 2024 |
| Title |
GNF351-preteated IS-trained immunity-2, 6 days |
| Sample type |
SRA |
| |
|
| Source name |
monocytes
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: monocytes
treatment: GNF351-preteated IS-trained immunity
|
| Treatment protocol |
Purified monocytes were seeded on plates and were treated with IS 1 mM for 24 h, followed by washing with pre-warmed PBS and incubation for another 5 days. GNF351 10 μM were used for a 1 hr pre-treatment prior to the treatment with IS.
|
| Growth protocol |
10% human serum media
Purified monocytes were treated with IS for 24 h, followed by washing with pre-warmed PBS and incubation for another 5 days in RPMI medium supplemented with 10% human AB serum, 100 U/ml penicillin, and 100 μg/ml streptomycin.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was prepared using RNA purification kit (Macherey-Nagel GmbH & Co.)
After RNA extraction, libraries for sequencing were prepared using the TruSeq Stranded mRNA LT Sample Prep Kit and sequencing were performed using NovaSeq 6000 System User Guide Document # 1000000019358 (Illumina).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
HC069_IS+G
Expression_Profile.GRCh37.transcript-1.xlsx
|
| Data processing |
NovaSeq 6000 System User Guide Document # 1000000019358 (Illumina)
Sequence reads were trimmed using illumina trimmometric 0.38 program
Trimmed reads were aligned to the human GRCh37 (NCBI_105.20190906)
Assembly: GRch37(NCBI_105.20190906)
Supplementary files format and content: Excel file includes read count and FPKM
|
| |
|
| Submission date |
Apr 02, 2024 |
| Last update date |
Jun 20, 2024 |
| Contact name |
Hee Young Kim |
| E-mail(s) |
hyk0801@hotmail.com
|
| Organization name |
Seoul National University College of Medicine
|
| Department |
Department of Microbiology and Immunology
|
| Street address |
103 Daehak-ro, Jongno-gu,
|
| City |
Seoul |
| ZIP/Postal code |
03080 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE263024 |
Uremic toxin indoxyl sulfate induces trained immunity via the AhR-dependent arachidonic acid pathway in end-stage renal disease [RNAseq] |
|
| Relations |
| BioSample |
SAMN40727719 |
| SRA |
SRX24149592 |
