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Sample GSM115530 Query DataSets for GSM115530
Status Public on Jun 13, 2007
Title Creatine-treated, biological rep5
Sample type RNA
 
Source name Mus musculus brain hemisphere
Organism Mus musculus
Characteristics Strain: C3HeB/FeJ
Age: 10-12 weeks at the beginning of the feeding regimen
Treatment protocol 6 mice were fed ad libitum on 1% creatine supplemented pellets for 6 months and 7 mice fed on equicaloric pellets without creatine (Altromin)
Growth protocol Mice were bred and kept at the GSF animal facilities in isolated ventilated cages type II with wood shavings (Altromin, Lage, Germany) as bedding at a temperature of 20 to 24o C, humidity of 50 to 60%, 20 air exchanges per hour and a 12/12-hour light/dark cycle. They were tested for microorganisms in 12-week intervals according to the FELASA Guidelines to the level required for rederived mice
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using the RNeasy kit (Qiagen) according to manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 microg total RNA (Expression Analysis Technical Manual, 2004, Affymetrix).
 
Hybridization protocol Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse Genome 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip Scaner 3000.
Description Gene expression data from male mice.
Data processing Genewise tests for significantly regulated transcripts between creatine treated and untreated mice were performed in the statistical programming language R with BioConductor using the dChip and the Robust Multichip Average (RMA) probeset summaries. Data are log-transformed and normalized with a lowess-smoother operating on MA-scale against the mean of the creatine treated group. Transcripts are called significantly regulated if the corresponding p-value of the Welch's t-test is below the 5% FDR significance level.
 
Submission date Jun 21, 2006
Last update date Aug 28, 2018
Contact name Johannes Beckers
E-mail(s) johannes.beckers@helmholtz-munich.de
Organization name Helmholtz Zentrum Muenchen
Department Institute of Experimental Genetics
Street address Ingolstaedter Landstr. 1
City Neuherberg
ZIP/Postal code 85764
Country Germany
 
Platform ID GPL1261
Series (1)
GSE5140 Creatine increases health and life span in mice
Relations
Reanalyzed by GSE119085

Data table header descriptions
ID_REF
VALUE linear, rounded, normalized (Lowess) Mas 5.0 probeset summaries

Data table
ID_REF VALUE
1415933_a_at 3060
1416981_at 202
1416982_at 160
1416983_s_at 282
1417154_at 639
1418197_at 6
1418640_at 135
1418762_at 16
1419519_at 27
1419607_at 4
1419727_at 1
1420657_at 23
1420658_at 33
1420715_a_at 45
1420978_at 21
1422582_at 7
1422622_at 95
1422651_at 9
1424119_at 145
1424622_at 126

Total number of rows: 45101

Table truncated, full table size 642 Kbytes.




Supplementary file Size Download File type/resource
GSM115530.CEL.gz 6.0 Mb (ftp)(http) CEL
GSM115530.xml.gz 4.0 Kb (ftp)(http) XML
Processed data included within Sample table

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