NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM267991 Query DataSets for GSM267991
Status Public on Oct 01, 2008
Title Kidney_Aqp11+/+_P7_4-2
Sample type RNA
 
Source name Aquaporin-11+/+_mouse P7 kidney #4-2
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 137.14 P 0.000258358
AFFX-BioB-M_at 213.36 P 5.16732e-05
AFFX-BioB-3_at 108.732 P 7.00668e-05
AFFX-BioC-5_at 322.112 P 5.16732e-05
AFFX-BioC-3_at 385.503 P 4.42873e-05
AFFX-BioDn-5_at 759.06 P 4.42873e-05
AFFX-BioDn-3_at 1379.55 P 4.42873e-05
AFFX-CreX-5_at 4346.8 P 5.16732e-05
AFFX-CreX-3_at 5338.11 P 4.42873e-05
AFFX-DapX-5_at 104.741 P 7.00668e-05
AFFX-DapX-M_at 227.57 P 0.0012475
AFFX-DapX-3_at 265.87 P 0.000146581
AFFX-LysX-5_at 11.9893 P 0.0125468
AFFX-LysX-M_at 26.3255 P 0.0200219
AFFX-LysX-3_at 39.9925 P 8.14279e-05
AFFX-PheX-5_at 29.8847 P 0.000753643
AFFX-PheX-M_at 20.7299 P 0.0151826
AFFX-PheX-3_at 52.6391 P 0.0012475
AFFX-ThrX-5_at 41.2943 P 0.00159257
AFFX-ThrX-M_at 39.2648 P 0.000340305

Total number of rows: 45101

Table truncated, full table size 1396 Kbytes.




Supplementary file Size Download File type/resource
GSM267991.CEL.gz 3.6 Mb (ftp)(http) CEL
GSM267991.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

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap