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Sample GSM587893 Query DataSets for GSM587893
Status Public on Aug 28, 2010
Title 6wk Wild type biological rep #1
Sample type RNA
 
Source name Urothelial RNA, 6 wks of age
Organism Mus musculus
Characteristics genetic background: FVB parent strain
genotype: wild type littermates
tissue: urothelium
age: 6wk
Growth protocol WT and UPII-SV40Tag mice were sacrificed at 3, 6, 20, and 30 weeks of age and the bladders immediately removed. The urothelial lining was removed from the bladder for RNA extraction.
Extracted molecule total RNA
Extraction protocol RNA was purified using TriReagent according to manufacturers instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from approximately 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
 
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45°C on the Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G.
Description Urothelial RNA, 6 wks of age
Data processing Pixel intensities were measured, expression signals were analyzed and features extracted using GeneChip Operating Software 1.3. Global scaling with a target intensity of 500 was used for normalization.
 
Submission date Aug 27, 2010
Last update date Aug 27, 2010
Contact name John L Clifford
E-mail(s) [email protected]
Phone 318-675-8264
Fax 318-675-5180
Organization name LSUHSC-Shreveport
Department Biochemistry
Lab Clifford
Street address 1501 Kings Hwy
City Shreveport
State/province LA
ZIP/Postal code 71106
Country USA
 
Platform ID GPL1261
Series (1)
GSE23845 Time course for bladder UCC development in UPII-SV40Tag mice

Data table header descriptions
ID_REF
VALUE MAS 5.0 signal
ABS_CALL indicating whether the transcript was present (P), absent (A), or marginal (M)
DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 746.837 P 8.14279e-05
AFFX-BioB-M_at 1546.52 P 4.42873e-05
AFFX-BioB-3_at 957.454 P 4.42873e-05
AFFX-BioC-5_at 1086.71 P 7.00668e-05
AFFX-BioC-3_at 996.759 P 5.16732e-05
AFFX-BioDn-5_at 6657.41 P 4.42873e-05
AFFX-BioDn-3_at 10518.6 P 4.42873e-05
AFFX-CreX-5_at 32293 P 4.42873e-05
AFFX-CreX-3_at 41690.4 P 4.42873e-05
AFFX-DapX-5_at 5.55051 A 0.953632
AFFX-DapX-M_at 58.1494 A 0.699552
AFFX-DapX-3_at 8.66373 A 0.937137
AFFX-LysX-5_at 2.15827 A 0.891523
AFFX-LysX-M_at 4.66146 A 0.984918
AFFX-LysX-3_at 40.8769 A 0.672949
AFFX-PheX-5_at 51.8423 A 0.686427
AFFX-PheX-M_at 54.9738 A 0.368416
AFFX-PheX-3_at 51.6682 A 0.686337
AFFX-ThrX-5_at 4.13794 A 0.98499
AFFX-ThrX-M_at 4.64143 A 0.990745

Total number of rows: 45101

Table truncated, full table size 1370 Kbytes.




Supplementary file Size Download File type/resource
GSM587893_308.CEL.gz 2.4 Mb (ftp)(http) CEL
GSM587893_308.CHP.gz 280.5 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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