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Sample GSM2719922 Query DataSets for GSM2719922
Status Public on Jul 28, 2017
Title HGSC_JB4548
Sample type RNA
Source name primary ovarian tumor tissue
Organism Homo sapiens
Characteristics stic: Yes
age: 51
path.stage: IV
surgical.outcome: Optimal
diagnosis.of.record: Ovarian Ca Fallopian Tube Ca
platinumfreeinterval.mos..: 10
platinumstatus: Sensitive
recurrence: Y
pfs.mos..: 14.6
os.mos..: 33
vitalstatus: Dead
race: WHITE
tcga_subtype_dif: -0.133
tcga_subtype_imr: -0.419
tcga_subtype_mes: -0.023
tcga_subtype_pro: 0.578
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 JB4548
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 10.81320619
hsa-let-7c 7.980113716
hsa-let-7d-5p 10.23662579
hsa-let-7e-5p 9.385506422
hsa-let-7f-5p 9.630789208
hsa-let-7g-5p 12.90600543
hsa-let-7i-5p 9.426557634
hsa-miR-1 6.046283112
hsa-miR-100-5p 8.897476099
hsa-miR-101-3p 5.794822144
hsa-miR-103a-3p 4.991928745
hsa-miR-105-5p 5.794822144
hsa-miR-106a-5p+hsa-miR-17-5p 8.379759569
hsa-miR-106b-5p 9.50820532
hsa-miR-107 7.746568771
hsa-miR-10a-5p 10.48090795
hsa-miR-10b-5p 9.103378371
hsa-miR-1178 5.586240112
hsa-miR-1179 5.794822144

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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