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Sample GSM2719898 Query DataSets for GSM2719898
Status Public on Jul 28, 2017
Title HGSC_40199
Sample type RNA
Source name primary ovarian tumor tissue
Organism Homo sapiens
Characteristics stic: No
age: 49
path.stage: III
surgical.outcome: Suboptimal
diagnosis.of.record: Not available Not available
platinumfreeinterval.mos..: Not available
platinumstatus: Not available
recurrence: Y
pfs.mos..: 13
os.mos..: 39
vitalstatus: Dead
race: Not available
tcga_subtype_dif: 0.322
tcga_subtype_imr: 0.123
tcga_subtype_mes: -0.491
tcga_subtype_pro: 0.147
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 40199
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 13.96620863
hsa-let-7b-5p 11.86756252
hsa-let-7c 7.949757918
hsa-let-7d-5p 11.13323897
hsa-let-7e-5p 9.545399422
hsa-let-7f-5p 9.811299817
hsa-let-7g-5p 14.63053063
hsa-let-7i-5p 9.949754386
hsa-miR-1 5.132858203
hsa-miR-100-5p 9.348265505
hsa-miR-101-3p 5.132858203
hsa-miR-103a-3p 4.253344422
hsa-miR-105-5p 5.470358756
hsa-miR-106a-5p+hsa-miR-17-5p 8.569903564
hsa-miR-106b-5p 8.6511076
hsa-miR-107 9.426557634
hsa-miR-10a-5p 9.902591863
hsa-miR-10b-5p 10.92572199
hsa-miR-1178 5.662295463
hsa-miR-1179 5.733034594

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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