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Sample GSM971312 Query DataSets for GSM971312
Status Public on Aug 07, 2012
Title epid_WT_LF
Sample type RNA
Source name epididymal adipose tissue
Organism Mus musculus
Characteristics tissue: epididymal adipose tissue
strain: C57BL/6
genotype: wildtype
diet: low 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 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 3454.802664
10338002 29.56391956
10338003 1006.241982
10338004 676.8579009
10338005 7.198629585
10338006 8.15951103
10338007 8.934730975
10338008 10.26644325
10338009 234.0138212
10338010 7.363472964
10338011 19.4667884
10338012 7.563667562
10338013 6.661547215
10338014 6.926795544
10338015 6.657643279
10338016 79.87445127
10338017 7413.836494
10338018 43.62303979
10338019 14.64334158
10338020 140.99675

Total number of rows: 35556

Table truncated, full table size 725 Kbytes.

Supplementary file Size Download File type/resource
GSM971312_G021_H06_02_epid_WT_LF.CEL.gz 4.6 Mb (ftp)(http) CEL
Processed data included within Sample table

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