NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM115001 Query DataSets for GSM115001
Status Public on Feb 15, 2007
Title Endometrium 3 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 7923.1631 104.9728 G 123.0127 7968.1631 1789.0000 8874.2520 49 7.89865398406982 64.775099889745 45.8108 45.0000 13.1834 76 GE200017
1002 489.9600 6.4914 G 8.5235 534.9600 568.0000 231.5686 25 5.64189577102661 62.7629558344765 44.3667 45.0000 11.8420 30 GE766244
1003 6.7273 0.0891 L 0.7847 53.7273 46.0000 21.9659 33 6.48204469680786 68.4723082984899 49.0667 47.0000 14.3149 77 GE766859
1004 19.5333 0.2588 L 0.8596 64.5333 63.0000 25.0463 15 4.37019395828247 75.0778984145493 52.8000 45.0000 20.0519 25 GE519376
1005 4.5484 0.0603 L 0.7501 52.5484 51.0000 16.5877 31 6.2825493812561 70.0558065349721 50.0909 48.0000 14.7039 68 GE519777
1006 5.6875 0.0754 L 0.7323 55.6875 57.0000 22.5020 16 4.51351690292358 76.0425820976064 55.7895 50.0000 17.3617 19 GE895719
1007 4.1333 0.0548 L 0.7066 54.1333 57.0000 19.5870 30 6.18038702011108 76.6122561671697 53.9683 50.0000 17.7415 65 GE896168
1008 9580.0625 126.9248 G 133.3080 9626.0625 4231.0000 9730.3184 48 7.81764030456543 72.2092057536733 49.7432 46.0000 17.4728 76 GE200018
1009 148.7600 1.9709 I 2.6105 196.7600 184.0000 81.6202 25 5.64189577102661 75.3737544242411 53.0333 48.0000 18.2492 30 GE768684
1010 259.2273 3.4345 I 4.4096 309.2273 337.0000 126.4332 22 5.29256725311279 70.1259934478078 49.2222 50.0000 13.4173 27 GE769330
1011 47.9444 0.6352 G 1.3226 94.9444 98.0000 21.8135 18 4.78730726242065 71.787608283954 47.7742 47.0000 16.5251 31 GE521062
1012 45.8824 0.6079 G 1.2873 93.8824 89.0000 34.1431 17 4.65242671966553 72.9288932840401 48.8387 48.0000 16.6193 31 GE521431
1013 17.4667 0.2314 L 0.9657 67.4667 67.0000 18.3444 15 4.37019395828247 69.8665396286843 48.3438 50.0000 13.2444 32 GE897528
1014 6.3571 0.0842 L 0.7472 56.3571 52.0000 20.3842 14 4.222008228302 75.423887693933 49.6875 50.0000 16.9493 32 GE897998
1015 8601.7246 113.9629 I 127.8149 8645.7246 5090.0000 8935.1377 40 7.13649654388428 67.6425392415845 48.7826 44.0000 15.7617 23 GE200019
1016 16.3636 0.2168 L 0.9358 61.3636 55.0000 23.9732 33 6.48204469680786 65.5748538689993 46.6324 45.0000 13.7166 70 GE766257
1017 8.7500 0.1159 L 0.7914 60.7500 53.0000 25.3291 32 6.38307666778564 76.7609920450581 53.5614 52.0000 16.5073 59 GE766861
1018 4.5385 0.0601 L 0.7520 54.5385 54.0000 17.4956 13 4.0684289932251 72.5221243146488 50.8750 50.0000 15.0147 24 GE519380
1019 8.8462 0.1172 L 0.5309 55.8462 47.0000 22.2602 13 4.0684289932251 105.182923450461 55.1000 47.0000 38.7886 30 GE519781
1020 32.6154 0.4321 L 0.8470 93.6154 97.0000 40.6572 13 4.0684289932251 110.530335986821 60.9063 61.0000 33.0202 32 GE895725

Total number of rows: 54359

Table truncated, full table size 6858 Kbytes.




Supplementary data files not provided

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap