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Sample GSM289103 Query DataSets for GSM289103
Status Public on Mar 31, 2009
Title NPC_control_3
Sample type RNA
 
Source name NPC treated with DMSO for 48 hr
Organism Rattus norvegicus
Characteristics Wister
NPC from cerebral cortices of embryo at E15.5
Treatment protocol Cells were treated with 1 uM corticosterone or vehicle (DMSO) for 48 hr.
Growth protocol Neuronal progenitor cells were prepared from cerebral cortices of rat embryo at E15.5. Cells were cultured with 20 ng/ml bFGF on fibronectin coated dish.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using TRIzol reagent (Invitrogen). Quality of the RNA was certificated using Agilent 2100 Bioanalyzer (Agilent Technlogies).
Label biotin
Label protocol cDNA were synthesized by GeneChip T7-Oligo(dT) Promoter Primer Kit(Affymetrix) and TaKaRa cDNA Synthesis Kit (TaKaRa Bio) from 3ug total RNA. Biotinylated cRNA were synthesized by IVT Labeling Kit (Affymetrix) .
 
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome 230 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using GeneChip Scanner 3000 7G.
Description gene expression data from rat NPC treated with control DMSO
Data processing Single Array Analysis were calculated by Microarray Suite version 5.0 (MAS5.0) with Affymetrix default setting and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
 
Submission date May 16, 2008
Last update date Dec 24, 2008
Contact name Taira Mayanagi
E-mail(s) taira@nbiochem.med.osaka-u.ac.jp
Organization name Osaka University Graduate School of Medicine
Street address Yamadaoka 2-2
City Suita
State/province Osaka
ZIP/Postal code 565-0871
Country Japan
 
Platform ID GPL1355
Series (1)
GSE11478 Effect of corticosterone treatment on rat neuronal progenitor cells

Data table header descriptions
ID_REF
VALUE 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 436.666 P 0.000195116
AFFX-BioB-M_at 606.599 P 4.42873e-05
AFFX-BioB-3_at 375.929 P 4.42873e-05
AFFX-BioC-5_at 455.364 P 9.4506e-05
AFFX-BioC-3_at 524.562 P 8.14279e-05
AFFX-BioDn-5_at 3398.41 P 6.02111e-05
AFFX-BioDn-3_at 5705.49 P 6.02111e-05
AFFX-CreX-5_at 16569 P 5.16732e-05
AFFX-CreX-3_at 20084 P 4.42873e-05
AFFX-DapX-5_at 9.4612 A 0.275111
AFFX-DapX-M_at 24.0909 A 0.156732
AFFX-DapX-3_at 2.45806 A 0.891041
AFFX-LysX-5_at 4.77985 A 0.382589
AFFX-LysX-M_at 32.5915 A 0.175328
AFFX-LysX-3_at 13.3209 A 0.195266
AFFX-PheX-5_at 1.98149 A 0.916408
AFFX-PheX-M_at 1.28598 A 0.916408
AFFX-PheX-3_at 24.3617 A 0.382599
AFFX-ThrX-5_at 2.4022 A 0.932322
AFFX-ThrX-M_at 13.2529 A 0.425962

Total number of rows: 31099

Table truncated, full table size 952 Kbytes.




Supplementary file Size Download File type/resource
GSM289103.CEL.gz 2.6 Mb (ftp)(http) CEL
GSM289103.CHP.gz 167.2 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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