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Sample GSM2719927 Query DataSets for GSM2719927
Status Public on Jul 28, 2017
Title HGSC_JB4744
Sample type RNA
Source name primary ovarian tumor tissue
Organism Homo sapiens
Characteristics stic: Yes
age: 78
path.stage: IIIC
surgical.outcome: Suboptimal
diagnosis.of.record: Fallopian Tube Ca Fallopian Tube Ca
platinumfreeinterval.mos..: 45.7
platinumstatus: Sensitive
recurrence: N
pfs.mos..: 50.4
os.mos..: 50.4
vitalstatus: Alive
race: OTHER
tcga_subtype_dif: 0.004
tcga_subtype_imr: -0.165
tcga_subtype_mes: 0.327
tcga_subtype_pro: -0.219
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 JB4744
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 12.29155079
hsa-let-7c 7.101608059
hsa-let-7d-5p 9.147285809
hsa-let-7e-5p 9.50820532
hsa-let-7f-5p 8.942404925
hsa-let-7g-5p 11.99748433
hsa-let-7i-5p 7.454220925
hsa-miR-1 5.887943345
hsa-miR-100-5p 9.103378371
hsa-miR-101-3p 5.141673713
hsa-miR-103a-3p 5.013318853
hsa-miR-105-5p 5.267263744
hsa-miR-106a-5p+hsa-miR-17-5p 10.23662579
hsa-miR-106b-5p 10.48090795
hsa-miR-107 7.483433949
hsa-miR-10a-5p 9.545399422
hsa-miR-10b-5p 7.565387933
hsa-miR-1178 5.013318853
hsa-miR-1179 5.810463399

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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