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Sample GSM572717 Query DataSets for GSM572717
Status Public on Oct 19, 2010
Title Muscle tissue, control diet, biological replicate 6
Sample type RNA
 
Source name Skeletal muscle tissue from mice fed a diet with low-CLA beef
Organism Mus musculus
Characteristics tissue: skeletal muscle tissue
genotype: ob/ob
strain: C57BL/6J
age: 4wk
gender: male
treatment: control diet
Treatment protocol Test diet blends were prepared by mixing low- or high-CLA beef at a 36% inclusion rate to equal portions of wheat feed and maize (corn) feed. Final feeds were prepared by mixing 100ml warm water with 100g test diet blend. Dietary food intake was measured daily and the animals received freshly prepared food each day.
Growth protocol 4 week old male, ob/ob (C57BL/6J) mice were exposed to 12 hrs light/ 12 hrs dark cycles, and maintained at a constant temperature of 22 degrees Celcius.
Extracted molecule total RNA
Extraction protocol RNA was later extracted using a Qiagen Rneasy extraction kit, according to the manufacturer extraction protocol.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2µg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
 
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Drosophila Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip Scanner 7G.
Description Gene expression data from skeletal muscle tissue of ob/ob mice fed a low-CLA control diet
Data processing Data were processed using the affy and gcrma libraries in the R statistical software, using gcrma background correction and normalization.
 
Submission date Jul 30, 2010
Last update date Oct 19, 2010
Contact name Helen M Roche
E-mail(s) helen.roche@ucd.ie
Organization name University College Dublin
Lab Nutrigenomics Research Group
Street address UCD Conway Institute of Biomolecular and Biomedical Research
City Dublin
State/province Belfield
ZIP/Postal code Dublin 4
Country Ireland
 
Platform ID GPL7440
Series (1)
GSE23337 Gene expression in adipose, liver and skeletal muscle of mice fed a diet with c9, t11 conjugated linoleic acid enriched beef

Data table header descriptions
ID_REF
VALUE GCRMA normalized signal intensity.

Data table
ID_REF VALUE
1415670_at 7.208464283
1415671_at 8.761683152
1415672_at 9.019222293
1415673_at 6.584603306
1415674_a_at 6.936833009
1415675_at 4.747810951
1415676_a_at 10.6773927
1415677_at 7.644284279
1415678_at 10.28873317
1415679_at 10.246858
1415680_at 6.990535281
1415681_at 8.429303623
1415682_at 7.117502707
1415683_at 8.932090642
1415684_at 6.914135878
1415685_at 8.752836737
1415686_at 8.821740411
1415687_a_at 10.68554849
1415688_at 10.69359478
1415689_s_at 4.292580966

Total number of rows: 23865

Table truncated, full table size 568 Kbytes.




Supplementary file Size Download File type/resource
GSM572717_Muscle_07.CEL.gz 2.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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