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Sample GSM2719921 Query DataSets for GSM2719921
Status Public on Jul 28, 2017
Title HGSC_JB4442
Sample type RNA
Source name primary ovarian tumor tissue
Organism Homo sapiens
Characteristics stic: Yes
age: 42
path.stage: IV
surgical.outcome: Optimal
diagnosis.of.record: Ovarian Ca Fallopian Tube Ca
platinumfreeinterval.mos..: 10.6
platinumstatus: Sensitive
recurrence: Y
pfs.mos..: 15.6
os.mos..: 36.6
vitalstatus: Dead
race: WHITE
tcga_subtype_dif: 0.663
tcga_subtype_imr: -0.011
tcga_subtype_mes: -0.22
tcga_subtype_pro: -0.355
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 JB4442
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 14.63053063
hsa-let-7b-5p 10.12791058
hsa-let-7c 8.340285839
hsa-let-7d-5p 11.20249641
hsa-let-7e-5p 9.426557634
hsa-let-7f-5p 10.07966611
hsa-let-7g-5p 13.33460836
hsa-let-7i-5p 9.630789208
hsa-miR-1 5.597038681
hsa-miR-100-5p 8.569903564
hsa-miR-101-3p 5.286667186
hsa-miR-103a-3p 4.992205513
hsa-miR-105-5p 4.647796196
hsa-miR-106a-5p+hsa-miR-17-5p 8.687225379
hsa-miR-106b-5p 8.897476099
hsa-miR-107 8.228292137
hsa-miR-10a-5p 11.44332627
hsa-miR-10b-5p 13.61570659
hsa-miR-1178 5.213848628
hsa-miR-1179 5.73779206

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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