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Sample GSM115013 Query DataSets for GSM115013
Status Public on Feb 15, 2007
Title Endometrium 9 WG
Sample type RNA
 
Source name endometrium
Organism Homo sapiens
Characteristics Human, female, of reproductive age, endometrial biopsy of eutopic endometrium, proliferative phase
Extracted molecule total RNA
Extraction protocol The eutopic and ectopic endometrial samples were placed in RNAlater (Ambion) in the surgical suite. The endometrial samples 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 application notes and manuals
 
Hybridization protocol see CodeLink application notes and manuals
Scan protocol see CodeLink application notes and manuals
Description Each patient served as her own control; the eutopic endometrial biopsies were obtained from the patients at the same surgery in which the endometriotic explants were excised. IRB approval and informed consent were obtained for all sample collection.
Data processing global median normalization, CodeLink Expression Analysis 4.1.0.4163
 
Submission date Jun 16, 2006
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 GPL2895
Series (1)
GSE5108 Whole human genome DNA microarray analysis of gene expression in ectopic vs. eutopic endometrium

Data table header descriptions
ID_REF #Raw_intensity = Raw signal intensity value
Raw_intensity
VALUE Median normalized signal intensity value
Quality_flag CodeLink quality flag
Signal_strength Signal strength
Spot_mean Spot median
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 6677.6089 105.5405 G 87.2403 6724.6089 8282.0000 5391.3667 135 13.1105813980103 77.0814480512535 50.7417 47.0000 20.0543 124 GE200017
1002 193.5867 3.0597 G 2.9019 242.5867 232.0000 91.0429 75 9.77204990386963 83.5961823935397 53.4716 49.0000 23.0641 182 GE766244
1003 7.0625 0.1116 L 0.6637 56.0625 48.0000 27.6902 32 6.38307666778564 84.4650981349338 53.2159 49.0000 23.6434 182 GE766859
1004 15.0000 0.2371 L 0.7609 61.0000 54.0000 27.4392 33 6.48204469680786 80.1717805502249 50.5000 46.0000 22.7812 146 GE519376
1005 5.6860 0.0899 L 0.6640 53.6860 45.0000 26.1508 86 10.4641580581665 80.8583476303594 51.2212 48.0000 21.9056 234 GE519777
1006 32.0000 0.5058 G 1.0064 79.0000 88.0000 38.1541 38 6.95579624176025 78.5010007781395 50.6404 47.0000 21.0007 184 GE895719
1007 15.5946 0.2465 L 0.8232 64.5946 62.0000 33.6158 37 6.86366271972656 78.4702980563257 50.7965 49.0000 19.6469 178 GE896168
1008 7263.2827 114.7971 G 92.3949 7313.2827 8853.0000 5730.5957 147 13.6808700561523 79.1524327009533 52.4211 50.0000 19.4350 118 GE200018
1009 291.8903 4.6134 G 4.3046 340.8903 351.0000 117.7151 82 10.2179079055786 79.1927407961117 52.1375 49.0000 20.1285 166 GE768684
1010 143.5278 2.2685 G 2.3308 188.5278 193.0000 65.1240 72 9.57461452484131 80.8839351224624 51.5868 45.0000 23.9226 125 GE769330
1011 26.2667 0.4151 L 0.8653 72.2667 63.0000 39.6733 90 10.7047443389893 83.5129817973048 53.2500 46.0000 25.0086 212 GE521062
1012 41.0000 0.6480 G 1.1236 88.0000 87.0000 40.7394 46 7.65303993225098 78.3180992338868 51.0844 47.0000 20.8787 160 GE521431
1013 16.4239 0.2596 L 0.8433 65.4239 64.0000 28.8419 92 10.8230323791504 77.5797873062257 51.1293 49.0000 19.0532 153 GE897528
1014 18.8571 0.2980 L 0.8254 65.8571 58.0000 37.2345 35 6.67558097839355 79.7861231146195 53.4800 47.0000 21.8574 181 GE897998
1015 6492.4165 102.6135 G 80.7038 6538.4165 8207.0000 5213.4590 122 12.4633550643921 81.017405250418 50.9250 46.0000 23.3449 124 GE200019
1016 43.2364 0.6834 G 1.1570 90.2364 89.0000 31.7095 55 8.36828422546387 77.9883746495735 50.0390 47.0000 20.6589 160 GE766257
1017 12.0556 0.1905 L 0.7750 60.0556 56.0000 26.1087 36 6.7702751159668 77.4930286542641 50.1688 48.0000 19.6620 160 GE766861
1018 12.5588 0.1985 L 0.7679 60.5588 63.0000 26.5554 34 6.57952451705933 78.866582372239 52.5714 48.0000 20.5777 188 GE519380
1019 8.4318 0.1333 L 0.6875 52.4318 49.0000 23.0690 88 10.5851345062256 76.2598438582978 48.6372 44.0000 21.5066 234 GE519781
1020 24.0000 0.3793 L 0.9082 71.0000 72.0000 26.5750 35 6.67558097839355 78.1788735787783 50.7527 47.0000 20.7859 188 GE895725

Total number of rows: 54359

Table truncated, full table size 6910 Kbytes.




Supplementary data files not provided

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