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Sample GSM1131299 Query DataSets for GSM1131299
Status Public on Nov 04, 2013
Title fasted, 24h, liver, biological replicate 2
Sample type RNA
 
Source name liver from C57BL/6 mice, fasted, 24h
Organism Mus musculus
Characteristics gender: male
strain: C57Bl/6
age: 10-12 weeks
tissue: liver
Treatment protocol Food was withdrawn from the fasting group (n=5) for 24 hours.
Growth protocol mice were kept under standard conditions according to the institutional guidelines of the University of Pennsylvania. Mice were kept with normal chow diet in a 12h day/ 12h night cycle.
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 150ng total RNA.
 
Hybridization protocol Genechip hybridization, wash, stain and scan were performed using the GeneTitan hyb-wash-stain kit (Affymetrix) and GeneTitan Instrument.
Scan protocol GeneTitan instrument was used for scanning.
Description gene expression of liver of fasted (24h) male C57Bl/6 mice
Data processing Raw array data were automatically collected by GeneTitan. Data were normalized using default RMA method within Partek Genomics Suite software. A two-way ANOVA model with an interaction term between diet (fed or fasted) and tissue (liver, skeletal muscle and white adipose tissue) was set up. Pairwise comparisons were made between fed and fasted diet for each tissue. The resulting p-values of significance were corrected for multiple testing using Benjamini-Hochberg's false discovery rate (FDR) method. Genes within 5% FDR and changed at least by 1.3-fold in either direction were called differentially expressed.
 
Submission date Apr 30, 2013
Last update date Nov 04, 2013
Contact name Andreas Prokesch
E-mail(s) andreas.prokesch@medunigraz.at
Organization name Medical University Graz
Department Institute of Cell Biology, Histology, and Embryology
Street address Harrachgasse 21/7
City Graz
State/province Styria
ZIP/Postal code 8010
Country Austria
 
Platform ID GPL11533
Series (1)
GSE46495 Transcriptome signature of white adipose tissue, liver, and skeletal muscle in 24 hours fasted mice (C57Bl/6J)

Data table header descriptions
ID_REF
VALUE RMA normalized log2 intensities

Data table
ID_REF VALUE
10605815 3.29088
10390103 10.1147
10406823 3.27148
10424979 9.72913
10447951 6.01874
10559790 4.32593
10442625 8.12225
10543017 8.74003
10469867 8.60996
10458046 6.61385
10505779 8.51281
10443730 6.91249
10544148 9.00663
10476383 7.96332
10503259 10.1653
10529858 9.88909
10495562 3.64143
10472212 9.74033
10556456 7.52188
10355567 9.68237

Total number of rows: 28815

Table truncated, full table size 475 Kbytes.




Supplementary file Size Download File type/resource
GSM1131299_3502_19482_fastedL2_MoGene1_1ST.CEL.gz 4.3 Mb (ftp)(http) CEL
Processed data included within Sample table

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