|
| Status |
Public on Jul 01, 2021 |
| Title |
PC-3_DMSO |
| Sample type |
SRA |
| |
|
| Source name |
prostate cancer cell line PC-3
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: PC-3
cell type: prostate cancer
inhibitor: Negetive control
|
| Treatment protocol |
OICR-9429 was diluted at a stocking solution of 50mM in dimethyl sulfoxide (DMSO, Sigma), and DU145 and PC-3 cells were treated for 48h with 120µM and 150 μM of OICR-9429，respectively.
|
| Growth protocol |
DU145 was cultured in DMEM (Gibco) and PC-3 was cultured in RPMI1640 (Gibco) supplemented with 10% FBS (Biological Industries) and 1% penicillin/streptomycin (Gibco). Cells were grown in a humidified atmosphere of 5% CO2 at 37°C.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using Trizol reagent and was further purified using Qiagen RNeasy Mini Kit according to the manufactures’ instructions. The RNA quality was assessed by formaldehyde agarose gel electrophoresis and was quantitated spectrophotometrically.
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 |
Base-calling: bcl2fastq2 v2.19.1
Data filtering : in house
Read alignment: hisat2 v2.1.0
transcript assemble: htseq-count v0.6.1
Genome_build: hg19
Supplementary_files_format_and_content: excel files include normalize values for each Sample
|
| |
|
| Submission date |
Feb 04, 2021 |
| Last update date |
Jul 01, 2021 |
| Contact name |
Qianghua Zhou |
| E-mail(s) |
zhouqh6@mail2.sysu.edu.cn
|
| Organization name |
sun yat-sen university
|
| Street address |
107th Yanjiangxi Road, Guangzhou
|
| City |
Guangzhou |
| ZIP/Postal code |
510020 |
| Country |
China |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE166136 |
WD repeat domain 5 promotes chemoresistance and Programmed Death-Ligand 1 expression in prostate cancer |
|
| Relations |
| BioSample |
SAMN17776177 |
| SRA |
SRX10020159 |
