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Sample GSM2719932 Query DataSets for GSM2719932
Status Public on Jul 28, 2017
Title HGSC_JB4841
Sample type RNA
 
Source name primary ovarian tumor tissue
Organism Homo sapiens
Characteristics stic: Yes
age: 74
path.stage: IIIB
surgical.outcome: Optimal
diagnosis.of.record: Ovarian Ca
diagnosis.after.path.re.review: Fallopian Tube Ca
platinumfreeinterval.mos..: 42.8
platinumstatus: Sensitive
recurrence: N
pfs.mos..: 48.1
os.mos..: 48.1
vitalstatus: Alive
race: WHITE
tcga_subtype_dif: 0.038
tcga_subtype_imr: -0.106
tcga_subtype_mes: -0.275
tcga_subtype_pro: 0.394
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 JB4841
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
E-mail(s) cope@jhu.edu
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
ID_REF
VALUE normalized counts

Data table
ID_REF VALUE
hsa-let-7a-5p 13.96620863
hsa-let-7b-5p 13.33460836
hsa-let-7c 10.38296593
hsa-let-7d-5p 9.902591863
hsa-let-7e-5p 8.856657481
hsa-let-7f-5p 9.385506422
hsa-let-7g-5p 13.09563314
hsa-let-7i-5p 10.53667503
hsa-miR-1 5.498232389
hsa-miR-100-5p 9.630789208
hsa-miR-101-3p 5.439560152
hsa-miR-103a-3p 4.902167538
hsa-miR-105-5p 4.547729057
hsa-miR-106a-5p+hsa-miR-17-5p 9.52692223
hsa-miR-106b-5p 8.897476099
hsa-miR-107 7.592045454
hsa-miR-10a-5p 8.301392703
hsa-miR-10b-5p 9.426557634
hsa-miR-1178 5.665198262
hsa-miR-1179 4.04648187

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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