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Sample GSM115014 Query DataSets for GSM115014
Status Public on Feb 15, 2007
Title Endometriosis 9 WG
Sample type RNA
 
Source name endometriosis
Organism Homo sapiens
Characteristics Human, female, of reproductive age, minimal endometriosis, peritoneal endometriosis
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 6978.5229 115.2201 G 93.8287 7025.5229 8573.0000 5271.6274 134 13.0619335174561 74.8760638246836 50.0917 47.0000 18.5840 124 GE200017
1002 194.3951 3.2096 G 3.3542 238.3951 216.0000 106.3396 81 10.1554126739502 71.0740913151902 46.0714 44.0000 18.0494 188 GE766244
1003 6.5686 0.1085 L 0.6840 51.5686 45.0000 24.1476 51 8.0582389831543 75.3905524310978 49.6814 45.0000 20.2604 117 GE766859
1004 7.5185 0.1241 L 0.6639 48.5185 44.0000 22.2592 54 8.29185962677002 73.0808944177002 45.5417 41.0000 21.3873 124 GE519376
1005 7.2000 0.1189 L 0.6966 52.2000 48.0000 27.9373 30 6.18038702011108 74.9330079225613 48.0659 45.0000 19.9553 188 GE519777
1006 23.1000 0.3814 L 0.8617 69.1000 66.0000 33.6933 40 7.13649654388428 80.1890607238465 51.1734 46.0000 22.7927 179 GE895719
1007 4.9655 0.0820 L 0.6413 48.9655 46.0000 21.5740 87 10.5248203277588 76.3477301119345 48.2018 44.0000 21.5652 236 GE896168
1008 6566.9111 108.4241 G 88.1033 6611.9111 7820.0000 4989.4570 148 13.7273254394531 75.0472243349234 49.7582 45.0000 20.0315 93 GE200018
1009 190.4512 3.1445 G 3.1417 231.4512 218.0000 81.5135 82 10.2179079055786 73.6715090324509 45.6759 41.0000 21.7810 151 GE768684
1010 120.1233 1.9833 G 2.1340 166.1233 162.0000 59.0706 73 9.64087581634521 77.8442066990979 49.8274 46.0000 21.2295 174 GE769330
1011 37.4250 0.6179 G 1.0689 86.4250 81.0000 40.5690 40 7.13649654388428 80.8561907584095 53.2102 49.0000 21.2375 182 GE521062
1012 52.7581 0.8711 G 1.2811 97.7581 94.0000 40.6998 62 8.88486671447754 76.3092576752745 49.1902 45.0000 20.8728 169 GE521431
1013 15.5588 0.2569 L 0.7666 63.5588 58.0000 27.1674 34 6.57952451705933 82.9128826208288 51.6703 48.0000 23.2753 188 GE897528
1014 20.0000 0.3302 L 0.8530 70.0000 61.0000 34.0294 33 6.48204469680786 82.0643625250082 53.7747 50.0000 21.3762 188 GE897998
1015 6188.8345 102.1818 G 79.7750 6235.8345 6885.0000 4943.8418 129 12.8159236907959 78.1677987151436 51.9820 47.0000 20.7785 115 GE200019
1016 204.8406 3.3821 G 2.9704 257.8406 260.0000 89.8518 69 9.37302112579346 86.8030018285861 54.8333 53.0000 22.5353 174 GE766257
1017 28.8788 0.4768 L 0.9323 77.8788 78.0000 28.6745 33 6.48204469680786 83.5359050406402 54.1778 49.0000 23.0239 186 GE766861
1018 23.0588 0.3807 L 0.9207 70.0588 64.0000 47.9196 34 6.57952451705933 76.0937548250819 49.1795 47.0000 19.3958 162 GE519380
1019 6.3871 0.1055 L 0.6900 53.3871 50.0000 23.4434 31 6.2825493812561 77.3705452220071 51.5064 47.0000 20.2470 162 GE519781
1020 14.7912 0.2442 L 0.7873 65.7912 60.0000 32.0242 91 10.7640514373779 83.5663279401002 54.3030 51.0000 21.7109 206 GE895725

Total number of rows: 54359

Table truncated, full table size 6906 Kbytes.




Supplementary data files not provided

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