|
| Status |
Public on Jul 28, 2017 |
| Title |
HGSC_JB5893 |
| Sample type |
RNA |
| |
|
| Source name |
primary ovarian tumor tissue
|
| Organism |
Homo sapiens |
| Characteristics |
stic: Yes
age: 65
path.stage: IIIC
surgical.outcome: Optimal
diagnosis.of.record: Ovarian Ca
diagnosis.after.path.re.review: Fallopian tube Ca
platinumfreeinterval.mos..: 9.6
platinumstatus: Sensitive
recurrence: N
pfs.mos..: 14.3
os.mos..: 14.3
vitalstatus: Alive
race: WHITE
tcga_subtype_dif: -0.138
tcga_subtype_imr: 0.119
tcga_subtype_mes: -0.284
tcga_subtype_pro: 0.34
tissue: primary tumor tissue from high grade serous ovarian tumors
|
| Extracted molecule |
total RNA |
| Extraction protocol |
DNA and RNA were co-isolated from frozen tissue tumor blocks, and RNA was isolated from normal tissues utilizing Ambion’s ToTALLY RNA™ RNA Isolation Kit (Part Number AM1910, ©Ambion, Inc.). DNA concentration was confirmed using a PicoGreen protocol. RNA quality was confirmed by utilizing an Agilent Bioanalyzer and assigning an RNA Integrity Number (RIN) to each sample.
|
| Label |
NA
|
| Label protocol |
Not applicable
|
| |
|
| Hybridization protocol |
Total RNA (100 ng) was obtained from 95 of 96 samples, and hybridized to the nCounter Human miRNA sample probes (Seattle, WA).
|
| Scan protocol |
Each sample was scanned for 600 FOV on the nCounter Digital Analyzer
|
| Description |
JB5893
|
| Data processing |
The nanoStringNorm procedure as implemented in the nanoStringNorm Bioconductor package was used to pre-process the miRNA data, followed by differential expression analysis with Empirical Bayes methods via the limma Bioconductor package.
|
| |
|
| Submission date |
Jul 27, 2017 |
| Last update date |
Jul 28, 2017 |
| Contact name |
leslie cope |
| E-mail(s) |
cope@jhu.edu
|
| Organization name |
leslie cope
|
| Street address |
550 N. Broadway
|
| City |
Baltimore |
| State/province |
MD |
| ZIP/Postal code |
21209 |
| Country |
USA |
| |
|
| Platform ID |
GPL17904 |
| Series (2) |
| GSE101976 |
Molecular analysis of high-grade serous ovarian carcinoma with and without associated serous tubal intra-epithelial carcinoma [miRNA expression] |
| GSE102094 |
Molecular analysis of high-grade serous ovarian carcinoma with and without associated serous tubal intra-epithelial carcinoma |
|
