|
| Status |
Public on Aug 03, 2022 |
| Title |
sgScd2/sgIrf9 (n=2) |
| Sample type |
SRA |
| |
|
| Source name |
Spleen
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: Spleen
cell type: Naive CD4 T Cells
genotype: SCD2/IRF9 DKO
treatment: stimulated under Th1 culture conditions (10 ng/ml IL-12) for 5 days in vitro.
|
| Treatment protocol |
Pharmacolgical drug was not treated in this assay
|
| Growth protocol |
See "description".
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total cellular RNA was extracted with TRIzol reagent (Invitrogen).
QuantSeq 3' mRNA-Seq Library Prep Kit FWD (LEXOGEN) was used for library constraction according to the manufacturer's protocol.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
For RNA-sequence, read sequences (75 bp) were aligned to the mm10 mouse reference genome (University of California, Santa Cruz (UCSC) December 2011) using STAR (version 2.7.9a).
Fragments per kilobase of transcripts for each gene were calculated using Subread (version 2.0.1, 13 ).
Assembly: mm10 mouse reference genome (University of California, Santa Cruz (UCSC) December 2011)
Supplementary files format and content: Text files include TPM values for each Sample
|
| |
|
| Submission date |
Apr 11, 2022 |
| Last update date |
Aug 03, 2022 |
| Contact name |
Toshio Kanno |
| E-mail(s) |
[email protected]
|
| Organization name |
KAZUSA DNA Research Institute
|
| Street address |
2-6-7 Kazusa-kamatari
|
| City |
Kisarazu |
| State/province |
Chiba |
| ZIP/Postal code |
292-0818 |
| Country |
Japan |
| |
|
| Platform ID |
GPL19057 |
| Series (1) |
| GSE200636 |
Effect of deletion of Irf3, Irf7 or Irf9 on gene expression in sgScd2 Th1 cells. |
|
| Relations |
| BioSample |
SAMN27522999 |
| SRA |
SRX14818866 |
