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Sample GSM2719899 Query DataSets for GSM2719899
Status Public on Jul 28, 2017
Title HGSC_40200
Sample type RNA
Source name primary ovarian tumor tissue
Organism Homo sapiens
Characteristics stic: Yes
age: 71
path.stage: III
surgical.outcome: Optimal
diagnosis.of.record: Not available Not available
platinumfreeinterval.mos..: Not available
platinumstatus: Not available
recurrence: Y
pfs.mos..: 22
os.mos..: 56
vitalstatus: Alive
race: Not available
tcga_subtype_dif: -0.071
tcga_subtype_imr: -0.294
tcga_subtype_mes: -0.018
tcga_subtype_pro: 0.386
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 40200
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 12.59047758
hsa-let-7c 9.147285809
hsa-let-7d-5p 10.64852145
hsa-let-7e-5p 9.787429285
hsa-let-7f-5p 9.902591863
hsa-let-7g-5p 12.29155079
hsa-let-7i-5p 10.07966611
hsa-miR-1 5.496899598
hsa-miR-100-5p 9.254699952
hsa-miR-101-3p 4.799692666
hsa-miR-103a-3p 4.42661788
hsa-miR-105-5p 4.620774683
hsa-miR-106a-5p+hsa-miR-17-5p 9.989280505
hsa-miR-106b-5p 9.195244236
hsa-miR-107 7.356928678
hsa-miR-10a-5p 8.26592836
hsa-miR-10b-5p 9.385506422
hsa-miR-1178 5.210675957
hsa-miR-1179 5.298561855

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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