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Sample GSM2719979 Query DataSets for GSM2719979
Status Public on Jul 28, 2017
Title HGSC_JB5982
Sample type RNA
Source name primary ovarian tumor tissue
Organism Homo sapiens
Characteristics stic: Yes
age: 56
path.stage: IV
surgical.outcome: Optimal
diagnosis.of.record: Ovarian Ca Fallopian Tube Ca
platinumfreeinterval.mos..: 8.6
platinumstatus: Sensitive
recurrence: N
pfs.mos..: 12.8
os.mos..: 12.8
vitalstatus: Alive
race: WHITE
tcga_subtype_dif: -0.075
tcga_subtype_imr: -0.303
tcga_subtype_mes: -0.144
tcga_subtype_pro: 0.547
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 JB5982
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 13.33460836
hsa-let-7b-5p 12.14299521
hsa-let-7c 8.52893892
hsa-let-7d-5p 10.12791058
hsa-let-7e-5p 9.348265505
hsa-let-7f-5p 8.856657481
hsa-let-7g-5p 12.29155079
hsa-let-7i-5p 9.989280505
hsa-miR-1 5.600053739
hsa-miR-100-5p 10.64852145
hsa-miR-101-3p 5.49177885
hsa-miR-103a-3p 4.293432442
hsa-miR-105-5p 4.293432442
hsa-miR-106a-5p+hsa-miR-17-5p 9.271825438
hsa-miR-106b-5p 9.103378371
hsa-miR-107 7.483433949
hsa-miR-10a-5p 9.949754386
hsa-miR-10b-5p 9.426557634
hsa-miR-1178 5.49177885
hsa-miR-1179 4.689964142

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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