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Sample GSM2719910 Query DataSets for GSM2719910
Status Public on Jul 28, 2017
Title HGSC_323T
Sample type RNA
Source name primary ovarian tumor tissue
Organism Homo sapiens
Characteristics stic: No
age: 53
path.stage: IIIC
surgical.outcome: Optimal
diagnosis.of.record: Ovarian Ca Ovarian Ca
platinumfreeinterval.mos..: 56.3
platinumstatus: Sensitive
recurrence: Y
pfs.mos..: 60.6
os.mos..: 86.7
vitalstatus: Alive
race: WHITE
tcga_subtype_dif: 0.258
tcga_subtype_imr: 0.208
tcga_subtype_mes: -0.229
tcga_subtype_pro: -0.187
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 323T
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 10.92572199
hsa-let-7c 9.989280505
hsa-let-7d-5p 8.856657481
hsa-let-7e-5p 9.426557634
hsa-let-7f-5p 8.111870904
hsa-let-7g-5p 12.59047758
hsa-let-7i-5p 10.38296593
hsa-miR-1 5.260639792
hsa-miR-100-5p 9.949754386
hsa-miR-101-3p 4.759399758
hsa-miR-103a-3p 4.531739319
hsa-miR-105-5p 4.306722728
hsa-miR-106a-5p+hsa-miR-17-5p 11.35498183
hsa-miR-106b-5p 10.64852145
hsa-miR-107 8.808819924
hsa-miR-10a-5p 6.999384113
hsa-miR-10b-5p 9.50820532
hsa-miR-1178 5.200738089
hsa-miR-1179 3.867303454

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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