GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM2719982 Query DataSets for GSM2719982
Status Public on Jul 28, 2017
Title HGSC_JH1066
Sample type RNA
Source name primary ovarian tumor tissue
Organism Homo sapiens
Characteristics stic: No
age: 59
path.stage: IIIC
surgical.outcome: Optimal
diagnosis.of.record: Ovarian Ca Ovarian Ca
platinumfreeinterval.mos..: 53.8
platinumstatus: Sensitive
recurrence: N
pfs.mos..: 58.6
os.mos..: 58.6
vitalstatus: Alive
race: OTHER
tcga_subtype_dif: 0.026
tcga_subtype_imr: 0.173
tcga_subtype_mes: -0.102
tcga_subtype_pro: -0.08
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 JH1066
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
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
VALUE normalized counts

Data table
hsa-let-7a-5p 13.61570659
hsa-let-7b-5p 11.35498183
hsa-let-7c 8.808819924
hsa-let-7d-5p 10.33505873
hsa-let-7e-5p 8.988253249
hsa-let-7f-5p 9.103378371
hsa-let-7g-5p 13.09563314
hsa-let-7i-5p 9.237368735
hsa-miR-1 4.976366048
hsa-miR-100-5p 9.811299817
hsa-miR-101-3p 6.301782082
hsa-miR-103a-3p 3.880685525
hsa-miR-105-5p 4.976366048
hsa-miR-106a-5p+hsa-miR-17-5p 9.902591863
hsa-miR-106b-5p 10.27861562
hsa-miR-107 7.812223252
hsa-miR-10a-5p 10.64852145
hsa-miR-10b-5p 8.897476099
hsa-miR-1178 5.342322681
hsa-miR-1179 5.342322681

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