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Sample GSM2719908 Query DataSets for GSM2719908
Status Public on Jul 28, 2017
Title HGSC_40211
Sample type RNA
Source name primary ovarian tumor tissue
Organism Homo sapiens
Characteristics stic: No
age: 62
path.stage: III
surgical.outcome: Suboptimal
diagnosis.of.record: Not available Not available
platinumfreeinterval.mos..: Not available
platinumstatus: Not available
recurrence: Y
pfs.mos..: 21
os.mos..: 38
vitalstatus: Dead
race: Not available
tcga_subtype_dif: 0.47
tcga_subtype_imr: -0.088
tcga_subtype_mes: -0.168
tcga_subtype_pro: -0.155
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 40211
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 12.14299521
hsa-let-7c 8.687225379
hsa-let-7d-5p 9.989280505
hsa-let-7e-5p 9.545399422
hsa-let-7f-5p 9.026379581
hsa-let-7g-5p 11.99748433
hsa-let-7i-5p 10.53667503
hsa-miR-1 4.493209098
hsa-miR-100-5p 10.27861562
hsa-miR-101-3p 5.026056859
hsa-miR-103a-3p 5.026056859
hsa-miR-105-5p 5.253499689
hsa-miR-106a-5p+hsa-miR-17-5p 10.12791058
hsa-miR-106b-5p 9.271825438
hsa-miR-107 8.340285839
hsa-miR-10a-5p 8.897476099
hsa-miR-10b-5p 9.630789208
hsa-miR-1178 5.604314833
hsa-miR-1179 5.253499689

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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