NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM2719987 Query DataSets for GSM2719987
Status Public on Jul 28, 2017
Title HGSC_JH993
Sample type RNA
 
Source name primary ovarian tumor tissue
Organism Homo sapiens
Characteristics stic: No
age: 73
path.stage: IIIA
surgical.outcome: Optimal
diagnosis.of.record: Ovarian Ca
diagnosis.after.path.re.review: Ovarian Ca
platinumfreeinterval.mos..: 70
platinumstatus: Sensitive
recurrence: N
pfs.mos..: 74.6
os.mos..: 74.6
vitalstatus: Alive
race: WHITE
tcga_subtype_dif: -0.317
tcga_subtype_imr: -0.259
tcga_subtype_mes: -0.069
tcga_subtype_pro: 0.642
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 JH993
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

Data table header descriptions
ID_REF
VALUE normalized counts

Data table
ID_REF VALUE
hsa-let-7a-5p 13.61570659
hsa-let-7b-5p 11.13323897
hsa-let-7c 10.18117999
hsa-let-7d-5p 8.856657481
hsa-let-7e-5p 9.473954347
hsa-let-7f-5p 9.306362265
hsa-let-7g-5p 12.76832734
hsa-let-7i-5p 9.50820532
hsa-miR-1 5.142980876
hsa-miR-100-5p 10.92572199
hsa-miR-101-3p 5.75966186
hsa-miR-103a-3p 5.395167454
hsa-miR-105-5p 5.687974169
hsa-miR-106a-5p+hsa-miR-17-5p 11.64692345
hsa-miR-106b-5p 9.811299817
hsa-miR-107 8.6511076
hsa-miR-10a-5p 8.687225379
hsa-miR-10b-5p 9.589347192
hsa-miR-1178 5.604314833
hsa-miR-1179 4.475665176

Total number of rows: 822

Table truncated, full table size 20 Kbytes.




Supplementary data files not provided
Processed data included within Sample table
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap