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Sample GSM2719952 Query DataSets for GSM2719952
Status Public on Jul 28, 2017
Title HGSC_JB5234
Sample type RNA
Source name primary ovarian tumor tissue
Organism Homo sapiens
Characteristics stic: No
age: 58
path.stage: IV
surgical.outcome: Optimal
diagnosis.of.record: Fallopian Tube Ca Fallopian Tube Ca
platinumfreeinterval.mos..: 4.4
platinumstatus: Resistant
recurrence: Y
pfs.mos..: 10.3
os.mos..: 36.5
vitalstatus: Alive
race: WHITE
tcga_subtype_dif: -0.012
tcga_subtype_imr: -0.121
tcga_subtype_mes: -0.223
tcga_subtype_pro: 0.396
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 JB5234
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 13.96620863
hsa-let-7b-5p 11.35498183
hsa-let-7c 9.717372485
hsa-let-7d-5p 11.76962517
hsa-let-7e-5p 10.48090795
hsa-let-7f-5p 9.385506422
hsa-let-7g-5p 12.90600543
hsa-let-7i-5p 10.70269354
hsa-miR-1 5.221657327
hsa-miR-100-5p 9.195244236
hsa-miR-101-3p 4.814388514
hsa-miR-103a-3p 5.221657327
hsa-miR-105-5p 7.879424607
hsa-miR-106a-5p+hsa-miR-17-5p 8.379759569
hsa-miR-106b-5p 8.897476099
hsa-miR-107 9.147285809
hsa-miR-10a-5p 7.780704485
hsa-miR-10b-5p 6.581933143
hsa-miR-1178 5.583300546
hsa-miR-1179 5.734977672

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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