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Sample GSM218362 Query DataSets for GSM218362
Status Public on Jul 08, 2008
Title Lethal Yellow mice pioglitazone treated #2
Sample type RNA
 
Source name ovary
Organism Mus musculus
Characteristics Ovary from pioglitazone-treated obese Lethal Yellow female mouse (C57BL/6J Ay/a), 180 days of age, treated by gavage with pioglitazone (0.1 mg/day) from 120 to 180 days of age.
Extracted molecule total RNA
Extraction protocol The ovaries were placed in RNAlater (Ambion) in the surgical suite. The ovaries were homogenized in TRI reagent (MRC) using a Polytron (Brinkmann). The RNA-containing 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 was evaluated with the RNA 6000 NanoLabChip in an Agilent Bioanalyzer.
Label Alexa-647
Label protocol see CodeLink Gene Expression System: Manual Labelled cRNA Target Preparation (0080074-00/Rev. AA/2004-04)
 
Hybridization protocol CodeLink Gene Expression System: Single-Assay Bioarray Hybridization and Detection (080075-00/Rev. AA/2004-04)
Scan protocol Scanning CodeLink Bioarrays on Agilent G2565 microarray scanner (63-0050-80/Rev.AC/2004-08)
Description IACUC approval was obtained for all animal treatments.
Data processing global median normalization, CodeLink Expression Analysis 4.1.0.4163
 
Submission date Aug 15, 2007
Last update date Feb 12, 2009
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 GPL2897
Series (1)
GSE8806 Pioglitazone treatment of Lethal Yellow mice

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

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
1001 6800.2559 35.0826 G 86.5758 6851.2559 5959.0000 5839.3262 131 12.9148902893066 79.1359389393109 52.3250 51.0000 18.7573 124
1002 2938.2578 15.1585 G 35.8882 2986.2578 3367.0000 1722.2301 130 12.8655023574829 83.210030745519 53.0420 48.0000 23.4734 123
1003 105.7059 0.5453 G 1.8343 153.7059 144.0000 86.5053 85 10.4031419754028 83.7934565275018 54.3697 48.0000 23.8623 123
1004 190.3398 0.9820 G 3.2198 235.3398 242.0000 97.4498 105 11.562445640564 73.090345206398 48.5583 45.0000 18.7269 124
1005 205.0274 1.0577 G 3.0787 253.0274 256.0000 97.8912 73 9.64087581634521 82.1851183113853 51.6648 48.0000 22.7901 188
1006 35.2857 0.1820 G 1.0477 80.2857 74.0000 32.8325 35 6.67558097839355 76.6338731805318 50.3107 45.0000 21.0893 183
1007 7680.7192 39.6249 G 83.1975 7730.7192 8594.0000 6211.1846 123 12.5143299102783 92.9200967421688 57.9167 50.0000 28.6134 124
1008 7500.3887 38.6946 G 83.6572 7552.3887 8796.0000 5998.9360 128 12.7661533355713 90.2778291224332 55.3083 52.0000 25.5186 124
1010 298.1963 1.5384 G 4.2318 350.1963 343.0000 122.1841 109 11.7806243896484 82.7532460332708 54.9725 52.0000 20.5022 113
1012 1123.9463 5.7985 G 15.6298 1170.9463 1305.0000 593.4681 93 10.8816947937012 74.9173565927302 50.3846 47.0000 18.6116 188
1013 100.8816 0.5204 G 2.0186 145.8816 136.0000 60.1336 76 9.83698177337646 72.267802217764 48.1374 45.0000 18.1785 188
1014 6951.4048 35.8624 G 88.0453 7000.4048 4989.0000 6310.6401 133 13.0131034851074 79.5091153373728 51.6583 49.0000 20.3394 124
1015 7379.7231 38.0721 G 85.9096 7428.7231 8695.0000 5953.4365 132 12.9640893936157 86.4714286132949 53.6556 49.0000 24.9810 92
1017 22.4545 0.1158 L 0.8871 70.4545 63.0000 35.6830 33 6.48204469680786 79.4207826759208 51.8681 48.0000 20.9472 188
1018 49.6147 0.2560 G 1.2690 96.6147 88.0000 46.5346 111 11.8882122039795 76.1320627601338 50.4973 47.0000 19.4214 189
1019 101.6563 0.5244 G 1.8873 150.6563 145.0000 57.1938 64 9.02703380584717 79.824352045772 53.8619 49.0000 20.5496 187
1020 53.8810 0.2780 G 1.2795 104.8810 102.0000 40.1172 42 7.3127326965332 81.9676120836206 54.6346 51.0000 20.6451 162
1021 7755.4346 40.0104 G 98.7116 7805.4346 10073.0000 5980.0093 124 12.5650987625122 79.0731472695495 52.4629 50.0000 19.3821 181
1022 6455.2241 33.3026 G 82.5387 6501.2241 5647.0000 5783.2773 127 12.7161874771118 78.7658082580156 52.7573 46.0000 21.8439 107
1024 12.1176 0.0625 L 0.7616 61.1176 58.0000 25.3014 34 6.57952451705933 80.2516010852215 52.3132 49.0000 20.8344 188

Total number of rows: 36227

Table truncated, full table size 4363 Kbytes.




Supplementary data files not provided
Raw data included within Sample table
Processed data included within Sample table

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