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Sample GSM2719907 Query DataSets for GSM2719907
Status Public on Jul 28, 2017
Title HGSC_40209
Sample type RNA
Source name primary ovarian tumor tissue
Organism Homo sapiens
Characteristics stic: No
age: 60
path.stage: III
surgical.outcome: Optimal
diagnosis.of.record: Not available Not available
platinumfreeinterval.mos..: Not available
platinumstatus: Not available
recurrence: Y
pfs.mos..: 27
os.mos..: 61
vitalstatus: Alive
race: Not available
tcga_subtype_dif: 0.071
tcga_subtype_imr: 0.62
tcga_subtype_mes: -0.375
tcga_subtype_pro: -0.259
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 40209
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 13.09563314
hsa-let-7b-5p 10.99189571
hsa-let-7c 8.455817338
hsa-let-7d-5p 10.23662579
hsa-let-7e-5p 8.340285839
hsa-let-7f-5p 9.06437093
hsa-let-7g-5p 12.76832734
hsa-let-7i-5p 10.59171976
hsa-miR-1 5.1256859
hsa-miR-100-5p 9.103378371
hsa-miR-101-3p 5.479557345
hsa-miR-103a-3p 4.741217172
hsa-miR-105-5p 5.284303717
hsa-miR-106a-5p+hsa-miR-17-5p 9.306362265
hsa-miR-106b-5p 9.50820532
hsa-miR-107 7.625088187
hsa-miR-10a-5p 10.12791058
hsa-miR-10b-5p 9.902591863
hsa-miR-1178 5.450263178
hsa-miR-1179 4.741217172

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

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