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Sample GSM267995 Query DataSets for GSM267995
Status Public on Oct 01, 2008
Title Kidney_Aqp11-/-_P7_5-2
Sample type RNA
 
Source name Aquaporin-11-/-_mouse P7 kidney #5-2
Organism Mus musculus
Characteristics Strain: C57BL/6J
Gender: male
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 110.279 P 0.000169227
AFFX-BioB-M_at 231.845 P 4.42873e-05
AFFX-BioB-3_at 132.097 P 7.00668e-05
AFFX-BioC-5_at 368.515 P 4.42873e-05
AFFX-BioC-3_at 334.821 P 4.42873e-05
AFFX-BioDn-5_at 810.696 P 4.42873e-05
AFFX-BioDn-3_at 1344.39 P 4.42873e-05
AFFX-CreX-5_at 3688.64 P 4.42873e-05
AFFX-CreX-3_at 4608.5 P 4.42873e-05
AFFX-DapX-5_at 95.2086 P 0.000224668
AFFX-DapX-M_at 173.453 P 0.000389797
AFFX-DapX-3_at 268.375 P 7.00668e-05
AFFX-LysX-5_at 15.7354 P 0.0151826
AFFX-LysX-M_at 22.7663 P 0.0200219
AFFX-LysX-3_at 35.2878 P 0.000856509
AFFX-PheX-5_at 21.3504 P 0.0151826
AFFX-PheX-M_at 15.6139 A 0.083592
AFFX-PheX-3_at 49.0941 P 0.00141043
AFFX-ThrX-5_at 35.7333 P 0.0012475
AFFX-ThrX-M_at 33.7094 P 0.000146581

Total number of rows: 45101

Table truncated, full table size 1396 Kbytes.




Supplementary file Size Download File type/resource
GSM267995.CEL.gz 3.5 Mb (ftp)(http) CEL
GSM267995.CHP.gz 5.3 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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