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Sample GSM362923 Query DataSets for GSM362923
Status Public on Feb 03, 2009
Title Control 3
Sample type RNA
 
Source name postmenopausal endometrium, Control 3
Organism Macaca fascicularis
Characteristics adult female ovariectomized macaque
normal endometrium
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from frozen endometrial samples using Tri Reagent (Molecular Research Center, Cincinnati,OH); purified using RNeasy Mini Kit (Qiagen, Valencia,CA); and quantified using NanoDrop ND1000 UV-vis spectrophotometer(NanoDrop, Wilmington,DE). RNA intactness and quality was confirmed using an Agilent 2100 Bioanalyzer (Wilmington,DE).
Label Biotin dye
Label protocol Enzo Bioarray kit. Biotinylated cRNA samples were prepared according to the standard Enzo BioarrayTM protocol (Enzo Life Sciences). In brief, one ug of total RNA from each sample was converted to double-stranded cDNA with the BioarrayTM Single-Round RNA Amplification and Labeling Kit (Enzo Life Sciences). After second-strand synthesis, the cDNA was purified with the cDNA Purification Kit (Enzo Life Sciences). The resulting double-stranded DNA was then used to generate multiple copies of biotinylated cRNA by in vitro transcription with the BioarrayTM HighYieldTM RNA Transcript Labeling Kit (Enzo Life Sciences).
 
Hybridization protocol Standard Affymetrix protocol for Eukaryotic samples. For each sample, ten µg of biotinylated cRNA spiked with bioB, bioC, bioD and cre (Hybridization Control) was hybridized to a Rhesus Macaque Microarray for 16 hours at 45ºC. Following hybridization, all arrays were washed and stained in an Affymetrix GeneChip Fluidics Station.
Scan protocol Stained arrays were scanned with an Affymetrix GeneChip® Scanner 3000.
Description Data were extracted from scanned images using GeneChip Operating Software(Affymetrix, Inc., Santa Clara,CA.
Data processing Quality checks and data analyses were carried out using Affymetrix GeneChip Operating Software (GCOS) and Expression Console. The samples were analyzed using the MAS5 algorithm in Affymetrix Expression Console.
 
Submission date Jan 22, 2009
Last update date Feb 02, 2009
Contact name Charles Wood
E-mail(s) chwood@wfubmc.edu
Organization name Wake Forest University School of Medicine
Department Pathology
Street address Medical Center Blvd
City Winston-Salem
State/province NC
ZIP/Postal code 27157-1040
Country USA
 
Platform ID GPL3535
Series (1)
GSE14518 Endometrial profile of low-dose estradiol and tamoxifen combination therapy

Data table header descriptions
ID_REF
VALUE MAS 5 signal
ABS_CALL
DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 351.014 P 0.000509415
AFFX-BioB-M_at 402.411 P 4.42873e-05
AFFX-BioB-3_at 300.321 P 4.42873e-05
AFFX-BioC-5_at 791.222 P 5.16732e-05
AFFX-BioC-3_at 1198.87 P 4.42873e-05
AFFX-BioDn-5_at 2169.18 P 4.42873e-05
AFFX-BioDn-3_at 3801.69 P 8.14279e-05
AFFX-CreX-5_at 10938.4 P 5.16732e-05
AFFX-CreX-3_at 11242.7 P 4.42873e-05
AFFX-DapX-5_at 291.929 P 4.42873e-05
AFFX-DapX-M_at 560.543 P 0.000581214
AFFX-DapX-3_at 519.366 P 5.16732e-05
AFFX-LysX-5_at 39.4059 P 0.000389797
AFFX-LysX-M_at 56.1672 P 0.0044838
AFFX-LysX-3_at 116.417 P 7.00668e-05
AFFX-PheX-5_at 61.4981 P 0.000509415
AFFX-PheX-M_at 52.2761 P 0.000662269
AFFX-PheX-3_at 67.7565 P 0.000662269
AFFX-ThrX-5_at 59.2609 P 0.000662269
AFFX-ThrX-M_at 85.4696 P 0.000509415

Total number of rows: 52865

Table truncated, full table size 2157 Kbytes.




Supplementary file Size Download File type/resource
GSM362923.CEL.gz 8.7 Mb (ftp)(http) CEL
GSM362923.CHP.gz 517.1 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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