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Sample GSM2719967 Query DataSets for GSM2719967
Status Public on Jul 28, 2017
Title HGSC_JB5548
Sample type RNA
Source name primary ovarian tumor tissue
Organism Homo sapiens
Characteristics stic: Yes
age: 59
path.stage: IIIC
surgical.outcome: Optimal
diagnosis.of.record: Fallopian Tube Ca Fallopian Tube Ca
platinumfreeinterval.mos..: 7
platinumstatus: Sensitive
recurrence: Y
pfs.mos..: 12
os.mos..: 26
vitalstatus: Alive
race: WHITE
tcga_subtype_dif: 0.187
tcga_subtype_imr: -0.128
tcga_subtype_mes: -0.031
tcga_subtype_pro: -0.009
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 JB5548
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 9.989280505
hsa-let-7c 8.193182429
hsa-let-7d-5p 8.669279512
hsa-let-7e-5p 9.306362265
hsa-let-7f-5p 8.283769502
hsa-let-7g-5p 12.29155079
hsa-let-7i-5p 8.52893892
hsa-miR-1 5.034588743
hsa-miR-100-5p 9.630789208
hsa-miR-101-3p 5.44929029
hsa-miR-103a-3p 3.494509932
hsa-miR-105-5p 5.034588743
hsa-miR-106a-5p+hsa-miR-17-5p 10.86672525
hsa-miR-106b-5p 10.42600935
hsa-miR-107 9.147285809
hsa-miR-10a-5p 8.00972256
hsa-miR-10b-5p 10.81320619
hsa-miR-1178 5.815785735
hsa-miR-1179 3.91724581

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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