|
| Status |
Public on Jun 01, 2022 |
| Title |
CHOtige |
| Sample type |
SRA |
| |
|
| Source name |
cell line
|
| Organism |
Cricetulus griseus |
| Characteristics |
cell line: CHO
treatment: tigecycline treatment (0.2 mg/ml) for 48 h
|
| Treatment protocol |
The CHO cells treated with tigecycline (0 mg/ml and 0.2 mg/ml) for 48 h.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The total RNA of CHO cells was harvested using Trizol reagent. Illumina TruSeq RNA Sample Prep Kit was used with 1 ug of total RNA for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard Illumina protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
HISAT2 (v2.1.0) software was used for sequence aligment.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to CriGri-PICR whole genome using Bowtie2 v2.3.5.
Transcripts Per Million reads (TPM) were calculated using RSEM tool (v1.3.1) from Bo Li et al., BMC Bioinformatics, 2011.
Assembly: Chinese hamster PICR (Cricetulus griseus)
Supplementary files format and content: Matrix table file with abundance measurements for every gene and every sample.
|
| |
|
| Submission date |
Mar 17, 2022 |
| Last update date |
Jun 01, 2022 |
| Contact name |
Dawei Wang |
| Organization name |
Shanghai Jiao Tong University School of Medicine
|
| Street address |
197 Ruijin Road II
|
| City |
Shanghai |
| State/province |
- |
| ZIP/Postal code |
200025 |
| Country |
China |
| |
|
| Platform ID |
GPL27425 |
| Series (1) |
| GSE198830 |
Mechanism of abnormal coagulation induced by tigecycline in cancers |
|
| Relations |
| BioSample |
SAMN26747791 |
| SRA |
SRX14491410 |
