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Sample GSM267994 Query DataSets for GSM267994
Status Public on Oct 01, 2008
Title Kidney_Aqp11+/+_P7_5-1
Sample type RNA
 
Source name Aquaporin-11+/+_mouse P7 kidney #5-1
Organism Mus musculus
Characteristics Strain: C57BL/6J
Gender: female
Age: 7 days
Tissue: kidney
Extracted molecule total RNA
Extraction protocol Mice were sacrificed by cervical dislocation. Kidneys were rapidly excised on ice, washed in ice-cold phosphate-buffered saline (PBS), immersed in RNAlater (Ambion) and stored at –20°C. Total RNA was isolated using TRIzol Reagent (Invitrogen) and cleaned up using an RNeasy minikit with DNase treatment (Qiagen). The RNA quality and quantity were examined by agarose-gel electrophoresis and a spectrophotometer (GE Healthcare).
Label Biotin
Label protocol Three micrograms of total RNA obtained from each kidney was individually reverse-transcribed, amplified, and labeled using GeneChip One-Cycle Target Labeling and Control Reagent package (Affymetrix) according to the manufacturer’s protocol.
 
Hybridization protocol Standard Affymetrix protocol
Scan protocol Standard Affymetrix protocol. The arrays were washed, stained using Fluidics Station (Affymetrix), and then scanned with the GeneChip Scanner (Affymetrix). Data collection was performed using GeneChip Operating Software (Affymetrix).
Description Standard Affymetrix protocol
Data processing GeneChip Scanner 3000, GCOS v1.3, raw data
 
Submission date Feb 26, 2008
Last update date Aug 28, 2018
Contact name Shinji Okada
E-mail(s) asoka@mail.ecc.u-tokyo.ac.jp
Organization name The University of Tokyo
Street address 1-1-1 Yayoi
City Bunkyo-ku, Tokyo
ZIP/Postal code 113-8657
Country Japan
 
Platform ID GPL1261
Series (1)
GSE10634 Aquaporin-11 knockout effect on kidney
Relations
Reanalyzed by GSE119085

Data table header descriptions
ID_REF
VALUE Signal by Affymetrix MAS5
ABS_CALL Flagged as present, absent, or marginal by Affymetrix MAS5
DETECTION P-VALUE Detection p-value by Affymetrix MAS5

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 98.9729 P 0.00010954
AFFX-BioB-M_at 160.736 P 6.02111e-05
AFFX-BioB-3_at 110.547 P 0.000146581
AFFX-BioC-5_at 345.675 P 4.42873e-05
AFFX-BioC-3_at 274.304 P 4.42873e-05
AFFX-BioDn-5_at 674.809 P 4.42873e-05
AFFX-BioDn-3_at 1160.23 P 4.42873e-05
AFFX-CreX-5_at 2847.66 P 4.42873e-05
AFFX-CreX-3_at 3848.09 P 4.42873e-05
AFFX-DapX-5_at 70.2073 P 0.000126798
AFFX-DapX-M_at 142.321 P 0.000340305
AFFX-DapX-3_at 235.708 P 9.4506e-05
AFFX-LysX-5_at 10.4092 A 0.0835735
AFFX-LysX-M_at 18.3007 P 0.00687065
AFFX-LysX-3_at 38.9037 P 0.00110197
AFFX-PheX-5_at 23.9055 P 0.000224668
AFFX-PheX-M_at 21.7523 P 0.000662269
AFFX-PheX-3_at 33.2379 P 0.00227496
AFFX-ThrX-5_at 36.3799 P 0.0022732
AFFX-ThrX-M_at 34.432 P 0.000856509

Total number of rows: 45101

Table truncated, full table size 1394 Kbytes.




Supplementary file Size Download File type/resource
GSM267994.CEL.gz 3.5 Mb (ftp)(http) CEL
GSM267994.CHP.gz 5.2 Mb (ftp)(http) CHP
Raw data provided as supplementary file
Processed data included within Sample table
Processed data provided as supplementary file

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