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Sample GSM2719939 Query DataSets for GSM2719939
Status Public on Jul 28, 2017
Title HGSC_JB4904
Sample type RNA
 
Source name primary ovarian tumor tissue
Organism Homo sapiens
Characteristics stic: Yes
age: 57
path.stage: IV
surgical.outcome: Optimal
diagnosis.of.record: Fallopian Tube Ca
diagnosis.after.path.re.review: Fallopian Tube Ca
platinumfreeinterval.mos..: 21.1
platinumstatus: Sensitive
recurrence: Y
pfs.mos..: 26.6
os.mos..: 37.8
vitalstatus: Dead
race: WHITE
tcga_subtype_dif: -0.424
tcga_subtype_imr: -0.025
tcga_subtype_mes: 0.37
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 JB4904
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 11.86756252
hsa-let-7b-5p 9.949754386
hsa-let-7c 7.205513414
hsa-let-7d-5p 9.147285809
hsa-let-7e-5p 8.687225379
hsa-let-7f-5p 8.379759569
hsa-let-7g-5p 12.90600543
hsa-let-7i-5p 9.630789208
hsa-miR-1 5.608938382
hsa-miR-100-5p 9.06437093
hsa-miR-101-3p 5.676558417
hsa-miR-103a-3p 5.439560152
hsa-miR-105-5p 4.108198686
hsa-miR-106a-5p+hsa-miR-17-5p 9.195244236
hsa-miR-106b-5p 9.857398301
hsa-miR-107 7.43159657
hsa-miR-10a-5p 9.902591863
hsa-miR-10b-5p 8.764048854
hsa-miR-1178 5.488954673
hsa-miR-1179 4.108198686

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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