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Sample GSM271152 Query DataSets for GSM271152
Status Public on Mar 06, 2008
Title NHE3-/- replicate 3
Sample type RNA
 
Source name colon
Organism Mus musculus
Characteristics Genotype: NHE3-/-
Age: 6-8 weeks
Treatment protocol N/A
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ug total RNA (Expression Analysis Technical Manual, 701021 Rev. 5, Affymetrix).
 
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC to GeneChip® Mouse Genome 430 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
Description Gene expression data from the colon of NHE3-deficient mice
whole colonic tissue was dissected from mice 6-8 weeks of age
Data processing The data were initially analyzed with Afymetrix GCOS software using Affymetrix default analysis settings and global scaling as normalization method. Subsequently, data were imported to GeneSpring v.7.3.1 (Agilent).
 
Submission date Mar 05, 2008
Last update date Aug 28, 2018
Contact name Pawel R. Kiela
E-mail(s) [email protected]
Phone 520-626-9687
Organization name University of Arizona
Department Pediatrics
Lab Gastroenterology and Nutrition
Street address 1501 N. Campbell Ave.
City Tucson
State/province AZ
ZIP/Postal code 85724
Country USA
 
Platform ID GPL1261
Series (1)
GSE10740 Expression data from the colon of wild-type and Slc9a3 (NHE3)-deficient mice
Relations
Reanalyzed by GSE119085

Data table header descriptions
ID_REF
VALUE GCOS raw signal intensity
ABS_CALL
DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 650.7 P 0.000662
AFFX-BioB-M_at 1162.9 P 5.2e-05
AFFX-BioB-3_at 737.2 P 6e-05
AFFX-BioC-5_at 2061.3 P 6e-05
AFFX-BioC-3_at 1928.7 P 4.4e-05
AFFX-BioDn-5_at 3601.5 P 4.4e-05
AFFX-BioDn-3_at 8094.8 P 5.2e-05
AFFX-CreX-5_at 24224.3 P 4.4e-05
AFFX-CreX-3_at 30369.8 P 4.4e-05
AFFX-DapX-5_at 16.7 A 0.631562
AFFX-DapX-M_at 3.8 A 0.712257
AFFX-DapX-3_at 34.8 A 0.699394
AFFX-LysX-5_at 2.8 A 0.957052
AFFX-LysX-M_at 14.1 A 0.843268
AFFX-LysX-3_at 41.1 A 0.354453
AFFX-PheX-5_at 4.7 A 0.883928
AFFX-PheX-M_at 7.1 A 0.897835
AFFX-PheX-3_at 87.8 A 0.131361
AFFX-ThrX-5_at 52.2 A 0.411373
AFFX-ThrX-M_at 6.2 A 0.659339

Total number of rows: 45101

Table truncated, full table size 1214 Kbytes.




Supplementary file Size Download File type/resource
GSM271152.CEL.gz 3.3 Mb (ftp)(http) CEL
Processed data included within Sample table

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