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Sample GSM322014 Query DataSets for GSM322014
Status Public on Jan 26, 2009
Title Pancreatic Islets_18h culture_10 mmol/l glucose_rep1
Sample type RNA
 
Source name Pancreatic islets, 18h culture, 10 mmol/l glucose
Organism Rattus norvegicus
Characteristics Strain: Wistar (male)
Weight: 180-200g
Treatment protocol After preculture, the islets were cultured 18h in serum-free RPMI medium containing 5 g/l BSA and 2, 5, 10 or 30 mmol/l glucose (1000 islets per condition).
Growth protocol After isolation, the islets were precultured for 1 week in serum-free RPMI medium containing 5 g/l BSA and 10 mmol/l glucose. The medium was renewed after 24h, then every 48h.
Extracted molecule total RNA
Extraction protocol Islet total RNA was extracted using the Absolutely microprep kit (Stratagene, city, CA, USA) following manufacturer’s instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
 
Hybridization protocol Fragmented cRNA was hybridized 16h at 45°C to a Rat Genome 230 2.0 array.
Scan protocol After hybridization, the arrays were washed and stained with streptavidin-phycoerythrin and scanned using the Affymetrix 3000 GeneScanner.
Description Before the experiment, the islets were precultured for 1 week in serum-free RPMI medium containing 5 g/l BSA and 10 mmol/l glucose
Data processing Raw data were analyzed using the Affymetrix GCOS software. Signal intensities were scaled using the global scaling method of the statistical expression algorithm taking 150 as target intensity value. Scaling factors were less than 3 times different from each other in all used arrays.
 
Submission date Sep 17, 2008
Last update date Jan 26, 2009
Contact name Jean-Christophe Jonas
E-mail(s) Jean-Christophe.Jonas@uclouvain.be
Phone +3227649575
Fax +3227645532
Organization name UCL, Faculty of Medicine
Department Physiology and Pharmacology
Lab Endocrinology and Metabolism
Street address Av. Hippocrate, 55
City Brussels
ZIP/Postal code B-1200
Country Belgium
 
Platform ID GPL1355
Series (1)
GSE12817 Cluster analysis of rat pancreatic islet gene mRNA levels after culture in low, intermediate and high [glucose]

Data table header descriptions
ID_REF
VALUE GCOS perfect match/mismatch probe signal intensity.
ABS_CALL
DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 241.1 P 0.000169
AFFX-BioB-M_at 482.4 P 0.00006
AFFX-BioB-3_at 222.2 P 0.000052
AFFX-BioC-5_at 512.5 P 0.000052
AFFX-BioC-3_at 464.7 P 0.000044
AFFX-BioDn-5_at 738.8 P 0.000052
AFFX-BioDn-3_at 2520.2 P 0.000147
AFFX-CreX-5_at 6109.6 P 0.000044
AFFX-CreX-3_at 7800.9 P 0.000044
AFFX-DapX-5_at 4.8 A 0.382599
AFFX-DapX-M_at 8.8 A 0.195246
AFFX-DapX-3_at 1.6 A 0.772364
AFFX-LysX-5_at 2.9 A 0.41138
AFFX-LysX-M_at 14.4 A 0.216524
AFFX-LysX-3_at 5 A 0.250796
AFFX-PheX-5_at 0.3 A 0.998407
AFFX-PheX-M_at 1.1 A 0.904333
AFFX-PheX-3_at 4.5 A 0.672921
AFFX-ThrX-5_at 6.7 A 0.425962
AFFX-ThrX-M_at 5.7 A 0.216504

Total number of rows: 31099

Table truncated, full table size 817 Kbytes.




Supplementary file Size Download File type/resource
GSM322014.CEL.gz 4.2 Mb (ftp)(http) CEL
GSM322014.EXP.gz 344 b (ftp)(http) EXP
Processed data included within Sample table

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