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Sample GSM2719949 Query DataSets for GSM2719949
Status Public on Jul 28, 2017
Title HGSC_JB5143
Sample type RNA
Source name primary ovarian tumor tissue
Organism Homo sapiens
Characteristics stic: Yes
age: 70
path.stage: IV
surgical.outcome: Optimal
diagnosis.of.record: Ovarian Ca Fallopian Tube Ca
platinumfreeinterval.mos..: 6.6
platinumstatus: Sensitive
recurrence: Y
pfs.mos..: 11.7
os.mos..: 27.1
vitalstatus: Dead
race: WHITE
tcga_subtype_dif: NA
tcga_subtype_imr: NA
tcga_subtype_mes: NA
tcga_subtype_pro: NA
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 JB5143
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 12.43918385
hsa-let-7b-5p 11.20249641
hsa-let-7c 7.120375952
hsa-let-7d-5p 9.969652806
hsa-let-7e-5p 9.007442357
hsa-let-7f-5p 8.897476099
hsa-let-7g-5p 11.35498183
hsa-let-7i-5p 9.652064131
hsa-miR-1 5.697179752
hsa-miR-100-5p 10.64852145
hsa-miR-101-3p 4.762796388
hsa-miR-103a-3p 4.22638684
hsa-miR-105-5p 5.697179752
hsa-miR-106a-5p+hsa-miR-17-5p 10.03912324
hsa-miR-106b-5p 9.271825438
hsa-miR-107 7.01898959
hsa-miR-10a-5p 8.614855114
hsa-miR-10b-5p 7.250251038
hsa-miR-1178 5.020282284
hsa-miR-1179 5.26194248

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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