|
| Status |
Public on Aug 22, 2020 |
| Title |
Ct-IL-15-1 |
| Sample type |
SRA |
| |
|
| Source name |
Naive mouse with IL-15
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
Sex: female
treatment: Uninfected-IL-15
cell type: Mouse lung epithelial cells
|
| Treatment protocol |
1 x 10^6 PFU of MCMV / 2ug of IL-15 (twice)
|
| Growth protocol |
Control group was uninfected and MCMV-infected group was infected with MCMV 1x10^6 pfu i.p. 30 days after infection, 0.5 million TC-1 cells diluted in 100ul of PBS were injected through mouse tail vein. After 7 days of injection, 2ug of IL-15 were injected to intra-peritoneal twice with interval of 2 days. At day 21, mouse lung was harvested and dissociated into single cells with mechanical and enzymatic digestion. Epithelial cells were seperated from those single cells by MACS cell sorter with EpCAM positive and CD45, CD31 negative.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from cells with TRIzol RNA isolation reagents.
Poly(A) RNA Selection + SMARTer stranded RNA-Seq kit HT
QuantSeq 3' mRNA-Seq Library Prep Kit FWD
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
Ct_IL15_1_Group2
|
| Data processing |
Illumina Casava1.8 software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence(using fastx_trimmer), then mapped to hg19 whole genome using Bowtie2
Read count extraction and nomalization were performed using edgeR.
Genome_build: hg19
Supplementary_files_format_and_content: raw counts and normalized counts
|
| |
|
| Submission date |
Aug 21, 2020 |
| Last update date |
Aug 24, 2020 |
| Contact name |
Galam Leem |
| E-mail(s) |
huntguy22@naver.com
|
| Organization name |
KAIST
|
| Lab |
LIID
|
| Street address |
291 Daehakro Yusunggu
|
| City |
Daejeon |
| ZIP/Postal code |
34141 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL19057 |
| Series (2) |
| GSE156605 |
Changes of gene expression patterns of mouse lung epithelial cells in response to IL-15 whether or not they have MCMV-memory CD8 T cells [mouse in vivo] |
| GSE156622 |
Changes of gene expression patterns of mouse in vivo and TC-1 cell lines |
|
| Relations |
| BioSample |
SAMN15872074 |
| SRA |
SRX8983096 |
