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Sample GSM573684 Query DataSets for GSM573684
Status Public on Jul 29, 2011
Title miRNA OSE 470
Sample type RNA
Source name Ovarian Surface Epithelia
Organism Homo sapiens
Characteristics tumor stage/grade: N/A
age at surgery: 44
Treatment protocol Normal ovarian surface epithelial (OSE) cells were collected from ovaries at time of surgery using a Cytobrush ® Plus (Medscand) and immediately stabilized in RNAlater (Ambion) and stored at –20 degrees C.
Extracted molecule total RNA
Extraction protocol RNA was isolated with Trizol (Invitrogen) and purified with PicoPure RNA Isolation Kit (Arcturus). RNA quality was verified on the Bioanalyzer RNA Pico Chip (Agilent Technologies).
Label biotin
Label protocol Affymetrix IVT Labeling Kit
Hybridization protocol Labeled mRNA was hybridized to GeneChip Human Genome U133 Plus 2.0 Arrays in the GeneChip Hybridization oven 640, further processed with the GeneChip Fluidics Station 450 and scanned with the GeneChip Scanner 3000.
Scan protocol as per manufacturer's protocol using GeneChip Scanner 3000.
Description Ovarian surface epithelia brushing from ovaries described by pathology as within normal limits.
Data processing MAS 5.0 via Affymetrix Expression Console (TM) Software Version 1.1
Submission date Aug 03, 2010
Last update date Jul 29, 2011
Contact name Shubin Shahab
Organization name Georgia Institute of Technology
Department Biology
Lab McDonald
Street address 310 Ferst Drive
City Atlanta
State/province GA
ZIP/Postal code 30332
Country USA
Platform ID GPL570
Series (2)
GSE23391 miRNAs in ovarian cancer: A systems approach (mRNA data)
GSE23392 miRNAs in ovarian cancer: A systems approach

Data table header descriptions
VALUE Signal
ABS_CALL indicating whether the transcript was present (P), absent (A), or marginal (M)

Data table
AFFX-BioB-5_at 1044.86 P 0.000389797
AFFX-BioB-M_at 918.412 P 4.42873e-05
AFFX-BioB-3_at 672.901 P 4.42873e-05
AFFX-BioC-5_at 1940.18 P 4.42873e-05
AFFX-BioC-3_at 2130.75 P 5.16732e-05
AFFX-BioDn-5_at 4061.14 P 4.42873e-05
AFFX-BioDn-3_at 6125.43 P 7.00668e-05
AFFX-CreX-5_at 22691.5 P 4.42873e-05
AFFX-CreX-3_at 22478.7 P 4.42873e-05
AFFX-DapX-5_at 5.56002 A 0.860518
AFFX-DapX-M_at 1.78437 A 0.995002
AFFX-DapX-3_at 8.94274 A 0.957038
AFFX-LysX-5_at 4.60207 A 0.922034
AFFX-LysX-M_at 52.0855 A 0.205732
AFFX-LysX-3_at 3.72896 A 0.897835
AFFX-PheX-5_at 7.07328 A 0.860518
AFFX-PheX-M_at 8.14583 A 0.9273
AFFX-PheX-3_at 40.7111 A 0.368438
AFFX-ThrX-5_at 43.6255 A 0.275146
AFFX-ThrX-M_at 60.1725 A 0.205732

Total number of rows: 54675

Table truncated, full table size 1629 Kbytes.

Supplementary file Size Download File type/resource
GSM573684.CEL.gz 4.8 Mb (ftp)(http) CEL
GSM573684.CHP.gz 488.2 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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