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Sample GSM737598 Query DataSets for GSM737598
Status Public on Jun 09, 2016
Title ovarian cancer cell line OV2008 treated with mifepristone rep 2
Sample type RNA
 
Source name ovarian cancer cell line OV2008 treated with mifepristone passage 12
Organism Homo sapiens
Characteristics species: human
gender: female
cell type: ovarian epithelial
cell line: OV-2008
p53 status: wild type
treatment: 20 micromolar mifepristone
pathology: serous cystoadenocarcinoma
passage: P12
comments: sensitive to cisplatin
sample: mifepristone2
Extracted molecule total RNA
Extraction protocol Ovarian cancer cell lines were grown in culture. TRI reagent was added to the cells for harvesting. Bromochloropropane and sodium acetate were added to the samples and centrifuged. The RNA-containing upper layer was removed and the RNA purified on an RNeasy extraction column (Qiagen). The sample was treated with an on-column DNase treatment (RNase-free DNase, Qiagen). The purity and quantity of total RNA was evaluated by spectrophotometry and agarose gel electrophoresis. (Eyster and Brannian, Meth Molec Biol 2010;590:71-89)
Label Alexa-647
Label protocol Biotinylated cRNA was prepared using the MessageAmp II-Biotin Enhanced Kit from Ambion from 1.0 microgram total RNA starting material. (Eyster and Brannian, Meth Molec Biol 2010;590:71-89)
 
Hybridization protocol 10 micrograms of biotinylated cRNA were mixed with fragmentation buffer and heated to 94C for 20 min. The fragmented cRNA was mixed with CodeLink hybridization buffer, loaded on the microarray slides, and hybridized for 18 hours at 37C. (Eyster and Brannian, Meth Molec Biol 2010;590:71-89)
Scan protocol The slides were scanned in an Axon GenePix 4000B scanner.
Description OV2008 cell line was a kind gift from Dr. Stephen Howell, UCSD.
Data processing global median normalization, CodeLink Expression Analysis 5.0
 
Submission date Jun 06, 2011
Last update date Jun 09, 2016
Contact name Kathleen M Eyster
E-mail(s) Kathleen.Eyster@usd.edu
Organization name University of South Dakota
Department Basic Biomedical Sciences
Street address 414 E. Clark St.
City Vermillion
State/province SD
ZIP/Postal code 57069
Country USA
 
Platform ID GPL2895
Series (1)
GSE29763 Gene expression profile associated with a cytostatic does of mifepristone in ovarian cancer cells by microarray analysis

Data table header descriptions
ID_REF
Raw_intensity Raw signal intensity value
VALUE Median normalized signal intensity value
Quality_flag CodeLink quality flag
Signal_strength Signal strength
Spot_mean Spot mean
Spot_median Spot median
Spot_stdev Spot standard deviation
Spot_area Spot area
Spot_diameter Spot diameter
Spot_noise_level Spot noise level
Bkgd_mean Background mean
Bkgd_median Background median
Bkgd_stdev Background standard deviation
Bkgd_area Background area
Probe_name CodeLink probe name

Data table
ID_REF Raw_intensity VALUE Quality_flag Signal_strength Spot_mean Spot_median Spot_stdev Spot_area Spot_diameter Spot_noise_level Bkgd_mean Bkgd_median Bkgd_stdev Bkgd_area Probe_name
1001 2552.0879 61.4240 G 41.7050 2594.0879 2333.0000 2258.2861 91 10.7640514373779 62.2009557929087 43.5730 42.0000 13.4673 184 GE200017
1002 302.0000 7.2686 G 5.7998 342.0000 371.0000 159.7390 77 9.90148735046387 58.9674641620379 42.0756 40.0000 12.6450 178 GE766244
1003 13.6750 0.3291 L 0.9205 55.6750 52.0000 20.4137 40 7.13649654388428 60.4842245062155 44.2632 42.0000 12.3228 158 GE766859
1004 6.0345 0.1452 L 0.7629 46.0345 44.0000 17.0405 29 6.07650756835938 60.3448114961126 42.8365 40.0000 13.5632 165 GE519376
1005 9.3667 0.2254 L 0.8092 49.3667 43.0000 25.4106 30 6.18038702011108 61.010156190264 43.1751 40.0000 14.0068 183 GE519777
1006 15.7576 0.3793 L 0.9326 55.7576 54.0000 20.9401 33 6.48204469680786 59.7890379369499 42.5714 40.0000 13.1927 188 GE895719
1007 6.8545 0.1650 L 0.7787 46.8545 45.0000 18.6483 55 8.36828422546387 60.1726140369906 42.4167 40.0000 13.4484 124 GE896168
1008 2345.2637 56.4461 G 36.3678 2387.2637 1842.0000 2178.6216 91 10.7640514373779 65.6422663599339 45.2797 42.0000 15.7615 147 GE200018
1009 71.0189 1.7093 I 1.8324 112.0189 107.0000 37.4959 53 8.21472454071045 61.131066829018 43.1813 41.0000 13.4207 188 GE768684
1010 178.4068 4.2939 G 3.5898 220.4068 232.0000 71.4029 59 8.66724491119385 61.3984899255868 43.7628 42.0000 12.9323 162 GE769330
1011 24.3513 0.5861 G 1.0330 67.3513 64.0000 26.1402 37 6.86366271972656 65.2022780587453 45.8280 43.0000 14.8015 163 GE521062
1012 20.2941 0.4884 L 0.9889 62.2941 64.0000 15.3038 34 6.57952451705933 62.9957651890548 44.9786 42.0000 13.9972 144 GE521431
1013 15.0345 0.3619 L 0.9046 54.0345 50.0000 26.3766 58 8.59348011016846 59.7357008631927 42.4018 39.0000 13.8238 116 GE897528
1014 115.5385 2.7808 G 2.5725 156.5385 155.0000 59.0554 65 9.09728336334229 60.849554677813 43.0872 41.0000 13.2330 155 GE897998
1015 2330.7070 56.0958 G 38.5588 2373.7070 1689.0000 2241.3372 99 11.2272310256958 61.5607450450893 45.4059 43.0000 12.3738 176 GE200019
1016 6.1667 0.1484 L 0.7705 47.1667 44.0000 14.0572 30 6.18038702011108 61.2129582586342 43.8014 41.0000 13.4753 152 GE766257
1017 12.0000 0.2888 L 0.8796 54.0000 50.0000 20.6573 91 10.7640514373779 61.3896662689079 44.7751 42.0000 12.9264 217 GE766861
1018 -9999 -9999 M -9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 GE519380
1019 14.9730 0.3604 L 0.9138 55.9730 58.0000 18.8672 37 6.86366271972656 61.2552810603529 42.9911 41.0000 13.5035 117 GE519781
1020 4.3793 0.1054 L 0.7505 48.3793 43.0000 24.8264 87 10.5248203277588 64.4645161290323 45.0078 44.0000 13.6430 133 GE895725

Total number of rows: 54359

Table truncated, full table size 6878 Kbytes.




Supplementary file Size Download File type/resource
GSM737598.TXT.gz 7.3 Mb (ftp)(http) TXT
Processed data included within Sample table
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