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Sample GSM218358 Query DataSets for GSM218358
Status Public on Jul 08, 2008
Title Lethal Yellow mice control #2
Sample type RNA
 
Source name ovary
Organism Mus musculus
Characteristics Ovary from control obese Lethal Yellow female mouse (C57BL/6J Ay/a), 180 days of age, treated by gavage with vehicle (0.1 ml 100% DMSO) 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 7032.6211 50.1224 G 89.5133 7079.6211 5944.0000 6099.1440 126 12.6660251617432 79.0901670768313 52.1345 47.0000 21.3934 123
1002 2288.8103 16.3127 G 25.9437 2339.8103 2677.0000 1175.2174 118 12.2573356628418 90.1880724680908 55.2101 51.0000 26.1254 123
1003 80.0968 0.5709 G 1.5126 134.0968 131.0000 39.8565 62 8.88486671447754 88.6543589253743 57.4835 54.0000 23.1029 188
1004 128.7879 0.9179 G 2.2621 176.7879 169.0000 68.3163 99 11.2272310256958 78.1533557417997 50.4917 48.0000 20.1022 124
1005 110.5000 0.7875 G 1.9273 158.5000 152.0000 56.3014 64 9.02703380584717 82.2406241209012 51.6429 48.0000 22.8271 188
1006 20.4066 0.1454 L 0.8559 67.4066 66.0000 29.3647 91 10.7640514373779 78.7536914259419 51.4000 47.0000 21.1691 191
1007 6249.8359 44.5434 G 75.2428 6301.8359 6131.0000 5431.7749 124 12.5650987625122 83.7533525656437 52.6610 52.0000 21.1689 122
1008 6728.4854 47.9548 G 84.4803 6777.4854 5625.0000 6242.8887 138 13.2554540634155 80.2256733408014 52.5345 49.0000 20.8171 120
1010 282.1909 2.0112 G 4.0013 336.1909 334.0000 127.1948 112 11.9416427612305 84.0199652500542 55.7400 54.0000 20.0133 104
1012 812.1000 5.7879 G 10.5067 861.1000 936.0000 362.7808 80 10.0925302505493 81.9574441202195 52.9835 49.0000 21.9716 188
1013 69.9216 0.4983 G 1.3158 117.9216 116.0000 38.1004 51 8.0582389831543 89.6187781650415 56.6409 48.0000 27.7459 187
1014 7566.3081 53.9261 G 88.4381 7616.3081 7674.0000 6343.3506 122 12.4633550643921 86.1202040069843 54.6167 50.0000 24.0801 124
1015 6923.5884 49.3453 G 89.1681 6971.5884 6577.0000 6300.4038 138 13.2554540634155 78.1847423136978 52.2800 48.0000 20.1232 104
1017 13.2778 0.0946 L 0.7760 67.2778 62.0000 31.5243 90 10.7047443389893 86.6929119089849 54.8137 54.0000 21.7953 212
1018 46.3400 0.3303 G 1.1420 99.3400 103.0000 33.0155 50 7.97884559631348 86.9893206575295 57.0823 53.0000 22.6596 164
1019 64.7222 0.4613 G 1.3916 112.7222 117.0000 39.0386 54 8.29185962677002 81.0009878602495 52.5028 48.0000 22.0007 187
1020 26.4091 0.1882 L 0.8723 77.4091 77.0000 34.7519 44 7.48482084274292 88.7382644509062 57.0714 51.0000 25.1588 188
1021 6713.6909 47.8494 G 83.0417 6762.6909 7888.0000 5705.9658 125 12.6156625747681 81.4372642794373 52.0927 49.0000 21.6248 157
1022 5391.4819 38.4258 G 67.2225 5439.4819 5270.0000 4440.5596 112 11.9416427612305 80.917638569417 51.5260 48.0000 21.9451 160
1024 12.4022 0.0884 L 0.7472 62.4022 57.0000 29.6094 92 10.8230323791504 83.5140633449396 54.7204 50.0000 22.3427 219

Total number of rows: 36227

Table truncated, full table size 4350 Kbytes.




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

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