|
| Status |
Public on Mar 06, 2017 |
| Title |
Flutamide+PPC_1 |
| Sample type |
SRA |
| |
|
| Source name |
LNCaP cells
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: prostate
cell line: LNCaP
|
| Treatment protocol |
LNCaP cells were treated with DMSO, 15 μM flutamide, 35 μM PPC or the combination for 6 hours
|
| Growth protocol |
LNCaP cells were grown in RPMI-1640 supplemented with 10% fetal bovine serum and 1% penicillin/streptomycin
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were lysed and RNA isolated using the RNeasy Mini Kit (Qiagen) according to the manufacturer’s protocol. The amount of total RNA was quantified using Qubit 2.0 Fluorometric Quantitation system and the RNA integrity number (RIN) was determined using Experion Automated Electrophoresis System
RNA-Seq libraries were prepared with TruSeq Stranded mRNA LT sample preparation kit using Sciclone and Zephyr liquid handling robotics. Library amount was quantified using the Qubit 2.0 Fluorometric Quantitation system and the size distribution was assessed using Experion Automated Electrophoresis System
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Description |
6 hours treatment
|
| Data processing |
Reads were aligned with tophat (v2.0.4) with the --no-novel-juncs --no-novel-indels options
Gene expression was calculated as Reads Per Kb per Millions of reads (RPKMs) using RPKM_count.py from the RSeQC package and the NCBI RNA reference sequences collection (RefSeq) downloaded from UCSC
Genome_build: hg38
Supplementary_files_format_and_content: cufflinks outputs including RPKM values for indicated samples, log2 values of the fold change and statistical analysis
|
| |
|
| Submission date |
Feb 10, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Marco Paolo Licciardello |
| E-mail(s) |
[email protected]
|
| Organization name |
The Institute of Cancer Research
|
| Street address |
15 Cotswold Road
|
| City |
London |
| ZIP/Postal code |
SM2 5NG |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL21290 |
| Series (1) |
| GSE94783 |
A combinatorial screen of the CLOUD uncovers a synergy targeting the androgen receptor |
|
| Relations |
| BioSample |
SAMN06320333 |
| SRA |
SRX2550999 |
