|
| Status |
Public on May 15, 2020 |
| Title |
siCtrl |
| Sample type |
SRA |
| |
|
| Source name |
bladder carcinoma cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: TSU-Pr1
|
| Treatment protocol |
K12 cells transfected siCINP and siCtrl respectively
|
| Growth protocol |
1640+8% FBS
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using Trizol reagent (Roche) from the cells.
RNA libraries were prepared for sequencing using standard BGI protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
BGISEQ-500 |
| |
|
| Data processing |
Basecalling and data filtering based on the BGI methord.
We use Bowtie2 to map clean reads to reference gene and use HISAT to reference hg19 genome.
FPKM method is used in calculated expression level
Genome_build: hg19
Supplementary_files_format_and_content: tab-delimited text files include RPKM values for each Sample ...
|
| |
|
| Submission date |
May 15, 2017 |
| Last update date |
May 15, 2020 |
| Contact name |
jintang dong |
| E-mail(s) |
jtdong@nankai.edu.cn
|
| Organization name |
Nankai university
|
| Street address |
Weijin road
|
| City |
Tianjin |
| ZIP/Postal code |
300071 |
| Country |
China |
| |
|
| Platform ID |
GPL23227 |
| Series (1) |
| GSE98930 |
Effect of Cyclin-dependent kinase 2 (CINP) inhibition on TSU-PR1 cell line with stable KLF5 expression May |
|
| Relations |
| BioSample |
SAMN07124523 |
| SRA |
SRX2824690 |
