|
| Status |
Public on Aug 22, 2020 |
| Title |
TC_1_Ct_2 |
| Sample type |
SRA |
| |
|
| Source name |
TC_1_Ct
|
| Organism |
Mus musculus |
| Characteristics |
cell line: TC-1
cell type: lung adenocarcinoma cell line
treatment: Untreated
|
| Treatment protocol |
20ng/ml IFN-gamma for 72 hours.
|
| Growth protocol |
Cells were growth in RPMI with 10% FBS and 1% penicillin/streptomycin. For 72 hours, IFN-gamma treated group was treated with 20ng/ml murine recombinant interferon-gamma and control group was untreated.
|
| 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 |
TC_1_Ct_2_S0
|
| 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 22, 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) |
| GSE156606 |
Changes of gene expression patterns of Mouse TC-1 cell lines responding to Interferon-gamma [TC-1 cell line] |
| GSE156622 |
Changes of gene expression patterns of mouse in vivo and TC-1 cell lines |
|
| Relations |
| BioSample |
SAMN15872082 |
| SRA |
SRX8983107 |
