|
| Status |
Public on Jan 04, 2022 |
| Title |
PEO23 R 08Hr rep3 |
| Sample type |
SRA |
| |
|
| Source name |
Human Ovarian Cancer cell line (platinum resistant)
|
| Organism |
Homo sapiens |
| Characteristics |
treatment: 80uM carboplatin
time of treatment: 8h
cell line and catalog #: PEO23 MilliporeSigma 10032313-1VL/ ECACC 1003213
|
| Treatment protocol |
Cells were plated in 150-mM tissue culture plates and cultured for 48 hours, at which point they were approximately 50% confluent. The cultures were then treated with vehicle or 80 µM carboplatin (S1215, Selleckchem US) for 8 or 24 hours
|
| Growth protocol |
Cells were grown in RPMI1640 (Corning 10-040-CV) medium supplemented with L-glutamine and 10% fetal bovine serum (heat Inactivated FBS, Atlanta Biologicals S10250)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from cell pellets with the miRNeasy Kit (Qiagen, cat#217504).
Purified total RNA samples were evaluated for quality and quantity by Agilent Bioanalzyer using RNA 6000 Nano chip and reagents (cat#5067-1511). Sequencing libraries were prepared using Illumina TruSeq stranded Total RNA sample preparation kit (cat# 20020597) from 200ng of RNA according to manufacturer’s protocol. The finished libraries were quantified by Qubit fluorometer, Agilent TapeStation 2200 D1000 screentape (cat#5067-5582), and RT-qPCR using the Roche Kapa Biosystems library quantification kit (cat#KK4854) according to manufacturer’s protocols. Whole genome libraries for copy number analysis were sequenced with >25M 75bp read pairs and RNAseq libraries were sequenced with >50M 75bp read pairs by the Molecular Biology Core Facilities at Dana-Farber Cancer Institute.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
PEO23p22
|
| Data processing |
Illumina Bcl2fastq v2.18
Genome_build: UCSC hg19
Supplementary_files_format_and_content: .csv
|
| |
|
| Submission date |
Dec 14, 2020 |
| Last update date |
Jan 04, 2022 |
| Contact name |
Amanda Paulovich |
| E-mail(s) |
apaulovi@fredhutch.org
|
| Organization name |
Fred Hutchinson Cancer Research Center
|
| Street address |
1100 Fairview Ave. N.
|
| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98109 |
| Country |
USA |
| |
|
| Platform ID |
GPL18573 |
| Series (1) |
| GSE163152 |
Multiomic analysis identifies CPT1A as a potential therapeutic target in platinum-refractory high grade serous ovarian cancer |
|
| Relations |
| BioSample |
SAMN17076533 |
| SRA |
SRX9682640 |
