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Sample GSM1422896 Query DataSets for GSM1422896
Status Public on May 18, 2015
Title eWAT_HFD_WT_replicate4
Sample type RNA
 
Source name WT_HFD 16wks_epidydimal white adipose
Organism Mus musculus
Characteristics strain: C57BL/6
gender: male
genotype/variation: wild type
diet: high fat diet (HFD) for 16 wks
tissue: epidydimal white adipose tissue
Treatment protocol After a 2 week run-in period on a low fat diet (LFD), male mice were given a high-fat diet (HFD) diet for 16 weeks. The LFD and HFD contained 10% respecytively 45% of energy derived from fat (diet formulations according to D12450B resp. D12451; Research Diets, Inc). After the 16 week diet intervention, epididymal white adipose tissue (eWAT) was removed, and stored at -800 until analysis.
Growth protocol The IL-37tg mice on a C57Bl/6 background have been reported before (Nold et al, Nat Immunol, 2010; PMID: 20935647). Wild type C57BL/6 mice were purchased from the Jackson Laboratories. All animal procedures were conducted under protocols approved by the animal experimentation committee of Radboud University Medical Centre, Nijmegen, the Netherlands.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using RNeasy micro kit from Qiagen. RNA integrity was checked on chip analysis (Agilent 2100 bioanalyzer, Agilent Technologies, Amsterdam, the Netherlands) according to the manufacturer's instructions. RNA was judged as suitable for array hybridization only if samples exhibited intact bands corresponding to the 18S and 28S ribosomal RNA subunits, and displayed no chromosomal peaks or RNA degradation products (RNA Integrity Number > 8.0).
Label biotin
Label protocol One hundred nanogram of RNA was used for whole transcript cDNA synthesis with the Ambion WT expression kit [catalog number 4411974] (Applied Biosystems/Life Technologies, Nieuwekerk a/d IJssel, The Netherlands).
 
Hybridization protocol Hybridization and washing of the Affymetrix GeneChip Mouse Gene 1.1 ST peg arrays were performed on a GeneTitan Instrument (Affymetrix, Santa Clara, CA) according to the manufacturer's recommendations.
Scan protocol Arrays were scanned on an Affymetrix GeneTitan instrument (Affymetrix, Santa Clara, CA).
Description G083_G07_04_WT_HFD.CEL
Data processing Expression estimates were calculated applying the RMA algorithm in the Bioconductor library 'Oligo' (v1.28.2).
 
Submission date Jun 30, 2014
Last update date May 18, 2015
Contact name Guido Hooiveld
E-mail(s) [email protected]
Organization name Wageningen University
Department Div. Human Nutrition & Health
Lab Nutrition, Metabolism & Genomics Group
Street address HELIX, Stippeneng 4
City Wageningen
ZIP/Postal code NL-6708WE
Country Netherlands
 
Platform ID GPL11533
Series (1)
GSE58952 IL-37 protects against obesity-induced inflammation and insulin resistance

Data table header descriptions
ID_REF
VALUE log2 RMA signal

Data table
ID_REF VALUE
10338001 10.65153961
10338002 4.556831277
10338003 8.984262857
10338004 8.097347536
10338005 2.214886973
10338006 2.470557035
10338007 2.663808998
10338008 3.019694815
10338009 6.664170503
10338010 2.305078005
10338011 3.968346311
10338012 2.335500721
10338013 2.07974926
10338014 2.187618689
10338015 2.105424456
10338016 5.753553569
10338017 11.86564845
10338018 4.904347648
10338019 3.582135013
10338020 6.395479865

Total number of rows: 35556

Table truncated, full table size 725 Kbytes.




Supplementary file Size Download File type/resource
GSM1422896_G083_G07_04_WT_HFD.CEL.gz 4.6 Mb (ftp)(http) CEL
Processed data included within Sample table

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