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Sample GSM115018 Query DataSets for GSM115018
Status Public on Feb 15, 2007
Title Endometrium 11 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 9908.1357 104.0110 G 123.6106 9956.1357 8346.0000 8835.2529 172 14.7985544204712 80.5443553245153 53.1284 48.0000 21.6962 226 GE200017
1002 367.9445 3.8625 G 5.1577 419.9445 444.0000 153.5798 110 11.8345403671265 81.4211396238654 52.9592 52.0000 19.6141 102 GE766244
1003 -0.9302 -0.0098 L 0.5920 51.0698 48.0000 19.5334 86 10.4641580581665 86.2618159039314 55.3367 52.0000 22.8412 207 GE766859
1004 22.2927 0.2340 L 0.8934 70.2927 73.0000 23.9891 41 7.22515201568604 78.6811513329517 51.2418 48.0000 20.4541 188 GE519376
1005 9.2529 0.0971 L 0.7058 57.2529 54.0000 26.9116 87 10.5248203277588 81.118494739108 52.9344 48.0000 22.0790 189 GE519777
1006 35.1667 0.3692 G 1.0236 76.1667 82.0000 31.5780 66 9.16699600219727 74.4111478081964 46.9877 41.0000 22.2741 83 GE895719
1007 16.1316 0.1693 L 0.8004 64.1316 55.0000 28.9011 38 6.95579624176025 80.1271573633736 52.9259 48.0000 21.4181 112 GE896168
1008 8108.6719 85.1211 G 105.0358 8156.6719 5608.0000 7665.4648 194 15.7165031433105 77.656125660535 51.5229 48.0000 19.7707 226 GE200018
1009 262.0782 2.7512 G 4.1295 307.0782 299.0000 105.3282 117 12.2052869796753 74.3624255930902 50.4407 45.0000 19.5750 122 GE768684
1010 204.2451 2.1441 G 3.0323 252.2451 251.0000 77.2201 104 11.5072546005249 83.187293799437 51.3558 48.0000 23.4582 108 GE769330
1011 37.2338 0.3909 G 1.1220 82.2338 82.0000 32.9505 77 9.90148735046387 73.2898451825487 49.2571 45.0000 18.8599 109 GE521062
1012 57.0494 0.5989 G 1.3408 107.0494 107.0000 43.1592 81 10.1554126739502 79.8423743289605 49.7750 50.0000 19.8949 124 GE521431
1013 26.4516 0.2777 L 0.9074 72.4516 72.0000 35.3369 62 8.88486671447754 79.8472695875813 52.3109 46.0000 22.5648 123 GE897528
1014 44.5905 0.4681 G 1.1606 88.5905 91.0000 33.6463 107 11.6720447540283 76.3313245389003 49.5600 44.0000 21.5542 233 GE897998
1015 8978.6572 94.2538 G 112.6908 9027.6572 6992.0000 8245.1572 171 14.7554721832275 80.1099567167562 52.9071 49.0000 20.7400 234 GE200019
1016 52.1348 0.5473 G 1.2965 102.1348 99.0000 38.7937 89 10.6451082229614 78.7751717959263 50.7079 50.0000 19.1834 91 GE766257
1017 10.8929 0.1143 L 0.7437 59.8929 55.0000 26.2071 56 8.444016456604 80.5295361404037 52.0395 49.0000 21.0197 78 GE766861
1018 10.3441 0.1086 L 0.7607 57.3441 52.0000 25.9592 93 10.8816947937012 75.3849556696952 50.7202 47.0000 18.9233 226 GE519380
1019 9.2258 0.0968 L 0.7495 59.2258 57.0000 23.8918 31 6.2825493812561 79.0186787051342 51.5570 50.0000 19.3458 164 GE519781
1020 28.3333 0.2974 L 0.9506 78.3333 72.0000 31.4254 33 6.48204469680786 82.4017088593785 55.1436 50.0000 21.6011 187 GE895725

Total number of rows: 54359

Table truncated, full table size 6957 Kbytes.




Supplementary data files not provided

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