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Sample GSM971313 Query DataSets for GSM971313
Status Public on Aug 07, 2012
Title epid_WT_HF
Sample type RNA
Source name epididymal adipose tissue
Organism Mus musculus
Characteristics tissue: epididymal adipose tissue
strain: C57BL/6
genotype: wildtype
diet: high fat
Treatment protocol Mice were age matched and fed standard chow until age 10-11 weeks, and subsequently fed LFD (10 kcal% fat, Research Diet D12450B) or HFD (45 kcal% fat, Research Diet D12451) for 18-19 weeks.
Growth protocol WT C57BL/6J mice (8 weeks; Charles River Laboratories) and CD1d-null mice that had been backcrossed to C57BL/6J for 10-12 generations were bred in our facility.
Extracted molecule total RNA
Extraction protocol Epididymal adipose tissue was excised and stored at −80C until analysis. RNA was extracted using Trizol (Invitrogen) and further purified on an RNeasy micro column (Qiagen). RNA samples from 4-6 mice per experimental group were pooled for microarray analysis.
Label biotin
Label protocol One hundred nanogram of RNA was used for whole transcript cDNA synthesis with the Ambion WT expression kit (Applied Biosystems, Nieuwekerk a/d IJssel, The Netherlands).
Hybridization protocol One hundred nanogram of RNA per sample was hybridized to an Affymetrix GeneChip Mouse Gene 1.1 ST 24-array plate (Santa Clara, CA) according to manufacturer's instructions.
Scan protocol Arrays were scanned on an Affymetrix 3000 7G scanner according to standard protocol.
Data processing Expression estimates were calculated using RMA using RMA using R version R-2.15.0 and Bioconductor 2.10
Submission date Jul 20, 2012
Last update date Aug 07, 2012
Contact name Guido Hooiveld
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)
GSE39534 CD1d-restricted NKT cell function prevents insulin resistance in lean mice, and is regulated by adipocytes and is regulated by adipocytes

Data table header descriptions
VALUE log2 RMA signal

Data table
10338001 2388.164664
10338002 26.10635964
10338003 625.684792
10338004 350.5405625
10338005 6.89259924
10338006 7.678559723
10338007 8.417802619
10338008 9.824915373
10338009 172.763161
10338010 7.063118313
10338011 17.61091908
10338012 7.177282672
10338013 6.433207171
10338014 6.670135691
10338015 6.469916602
10338016 63.60980076
10338017 5905.562804
10338018 35.77778444
10338019 13.25374005
10338020 111.0884521

Total number of rows: 35556

Table truncated, full table size 725 Kbytes.

Supplementary file Size Download File type/resource
GSM971313_G021_H08_04_epid_WT_HF.CEL.gz 4.8 Mb (ftp)(http) CEL
Processed data included within Sample table

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