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Sample GSM885585 Query DataSets for GSM885585
Status Public on Jun 12, 2012
Title Quadriceps from mdx mouse 4
Sample type RNA
 
Source name Quadriceps from mdx mouse 4
Organism Mus musculus
Characteristics background strain: C57/B10
genotype: mdx
gender: male
age: 8 weeks
tissue: quadriceps
mouse identifier: mdx 4
Extracted molecule total RNA
Extraction protocol The heart, quadriceps femoris, and diaphragm were dissected and flash frozen in liquid nitrogen-cooled isopentane. Samples were homogenised using Precellys 24 (Bertin Technologies, France), and RNA was extracted using TRIzol reagent (Invitrogen) as according to the manufacturer’s instructions. Each RNA sample was analysed using the Agilent 2100 Bioanalyzer (Agilent Technologies, USA) to assess RNA quality.
Label biotin
Label protocol 1 ug of total RNA was labeled using the FlashTag Biotin HSR kit (Genisphere).
 
Hybridization protocol Total labeled RNA was hybridised to the Affymetrix GeneChip miRNA array 2.0 using the manufacturer's protocols.
Scan protocol Image files from scanning (.dat and .cel files) were generated with the Affymetrix Expression Console package.
Description Quad_mdx_4
miRNA expression data from diaphragm, heart and quadriceps of mdx and WT C57/B10 mice.
Data processing The processing and data analyses were performed in Affymetrix miRNA QCTool, as well as in DNA-Chip Analyzer (dChip) and Excel. The analysis was done according to the following workflow; BC-CG background adjustment, Quantile normalisation and Median Polish summarisation. Since the miRNA 2.0 array covers 131 organisms, we sorted out Mus musculus transcripts only.
 
Submission date Mar 04, 2012
Last update date Jun 12, 2012
Contact name Thomas C Roberts
E-mail(s) thomas.roberts@dpag.ox.ac.uk
Organization name University of Oxford
Department Department of Physiology, Anatomy and Genetics
Street address South Parks Road
City Oxford
ZIP/Postal code OX1 3QX
Country United Kingdom
 
Platform ID GPL14613
Series (1)
GSE36257 Expression analysis in multiple muscle groups and serum reveals complexity in the microRNA transcriptome of the mdx mouse and implications for therapy

Data table header descriptions
ID_REF
VALUE Signal intensity (BC-CG adjusted, quantile normalized, median polish summarized, transformed to linear)
p-value
Detection

Data table
ID_REF VALUE p-value Detection
mmu-miR-188-5p_st 174.6788 5.17E-12 True
mmu-miR-501-5p_st 273.726257 8.72E-16 True
hp_mmu-mir-127_st 33.5936127 0.000306317 True
mmu-miR-376b_st 84.87468 2.69E-07 True
mmu-miR-1930_st 45.27069 0.000859047 True
mmu-let-7c_st 26950.9414 8.72E-16 True
mmu-miR-378-star_st 3701.862 8.72E-16 True
mmu-miR-362-5p_st 1158.35681 8.72E-16 True
mmu-miR-31-star_st 167.7422 1.36E-14 True
mmu-miR-34c_st 259.323822 8.72E-16 True
mmu-miR-298_st 162.141571 1.95E-09 True
mmu-miR-221_st 3464.855 8.72E-16 True
mmu-miR-494_st 1372.50708 8.72E-16 True
mmu-miR-34b-3p_st 149.234268 1.44E-12 True
mmu-miR-543_st 71.8754654 1.62E-06 True
mmu-miR-187_st 94.86414 2.93E-07 True
v11_mmu-miR-805_st 2262.03857 8.72E-16 True
mmu-miR-708_st 175.048859 2.26E-15 True
mmu-miR-2140_st 1172.33362 8.72E-16 True
mmu-miR-206_st 31874.002 8.72E-16 True

Total number of rows: 877

Table truncated, full table size 37 Kbytes.




Supplementary file Size Download File type/resource
GSM885585_Quad_mdx_4.CEL.gz 718.9 Kb (ftp)(http) CEL
Processed data included within Sample table

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