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Sample GSM518355 Query DataSets for GSM518355
Status Public on Apr 01, 2010
Title RORalpha1delDE, 2
Sample type RNA
 
Source name quadriceps femoris
Organism Mus musculus
Characteristics strain: C57BL/6
genotype: RORalpha1delDE
replicate: 2
Growth protocol Mice (backcrossed C57Bl/6J background) were housed in QBP vivarium (University of Queensland, St. Lucia, Queensland, Australia) with 12h light–dark cycle and fed a standard diet containing 4.6% total fat (from Specialty Feeds, Glen Forrest, Western Australia) and water provided ad libitum.
Extracted molecule total RNA
Extraction protocol Mice were overnight fasted and then sacrificed at 9:00AM in the morning. RNA was extracted from snap frozen quadriceps femoris with tri-reagent (Sigma), followed by treatment with QIAGEN RNeasy mini kit in accordance with the prescribed protocol provided with the kit. Quality control was performed with Agilent Bioanalyser 2100.
Label biotin
Label protocol Biotinylated cRNA were prepared with the Illumina TotalPrep RNA Amplification kit (Ambion)
 
Hybridization protocol Standard Illumina hybridization protocol.
Scan protocol Scanned with Illumina BeadStation Scanner.
Description Transgenic mice contained a truncated version of human RORalpha1 (RORalpha1delDE) where the entire E region and part of the hinge/D region have been removed. This transgene is driven by a skeletal muscle specific human skeletal alpha-actin (HSA) promoter.
4068846001_E
Data processing Data was compiled using BeadStudio v2.3.41 (Illumina). Normalized data was produced using GeneSpring GX version 11 via normalization to control genes, where control genes were represented by all genes with an Illumina detection score equal to one in at least three out of the six samples (7730 control genes in total).
 
Submission date Mar 05, 2010
Last update date Mar 05, 2010
Contact name Michael Andrew Pearen
E-mail(s) m.pearen@uq.edu.au
Phone +61 7 33462365
Fax +61 7 33462101
Organization name Institute for Molecular Bioscience
Lab Group Muscat
Street address The University of Queensland
City St Lucia
State/province Queensland
ZIP/Postal code 4072
Country Australia
 
Platform ID GPL6105
Series (1)
GSE20646 Identification and validation of the pathways and functions regulated by the ROR alpha1 in skeletal muscle

Data table header descriptions
ID_REF
VALUE Normalized data

Data table
ID_REF VALUE
ILMN_1219891 -0.028212786
ILMN_2504945 0.15773201
ILMN_2481381 0.07179332
ILMN_2514482 -0.014758587
ILMN_2508277 0.053310394
ILMN_2516718 0.19492555
ILMN_2423589 0.034564257
ILMN_2518810 0.04270029
ILMN_2520883 0.021004438
ILMN_1253780 0.10346484
ILMN_2487542 0.0570004
ILMN_2446717 -0.020923615
ILMN_2503259 -0.021357298
ILMN_1242708 0.1858933
ILMN_2478051 0.3074243
ILMN_2426740 -0.0332644
ILMN_2478074 -0.15958571
ILMN_2440107 0.07984257
ILMN_1230073 -0.026881695
ILMN_2638923 0.055514812

Total number of rows: 46632

Table truncated, full table size 1127 Kbytes.




Supplementary data files not provided
Processed data included within Sample table
Raw data are available on Series record

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