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Sample GSM471373 Query DataSets for GSM471373
Status Public on Feb 15, 2010
Title AdiposeTissue_KO_2
Sample type RNA
 
Source name Adipose tissue from knockount mice collected 11 hours after fasting
Organism Mus musculus
Characteristics genotype: Cav1 KO
tissue: Adipose
Treatment protocol Mice were kept with access to food and water ad libitum with cycles of light and dark of 12 hours. Sacrifice of the animals and harvest of the tissues happened 24 hours after food withdrawal for the liver and 11 hours after food withdrawal for the adipose tissue. Tissues were cleaned from blood with cold PBS and rapidly frozen in liquid nitrogen. Then, we extracted RNA following RNAeasy RNA kit purification instructions. Once purified, total RNA was store at -80 until its analysis by microarray.
Extracted molecule total RNA
Extraction protocol Quiagen RNAeasy purification kit.
Label Biotin
Label protocol For labeling we followed Illumina TotalPrep RNA Amplification Kit
 
Hybridization protocol Illumina manufacturer's instructions
Scan protocol Illumina manufacturer's instructions
Description n/a
Data processing data was extracted with Bead Studio, then it was imported in R and read with the Lumi package, RMA-like background corrected with the affy package, quantile normalized with the Lumi package and then analysed with LIMMA. All these packages are part of Bioconductor.
 
Submission date Nov 16, 2009
Last update date Nov 16, 2009
Contact name Milena Gongora
E-mail(s) milenagongora@gmail.com
Organization name Institute for Molecular Biosciences
Street address bld 80, services rd
City St. Lucia
State/province QLD
ZIP/Postal code 4072
Country Australia
 
Platform ID GPL6333
Series (1)
GSE19045 Effects of Caveolin 1 knockout in mice

Data table header descriptions
ID_REF
VALUE quantile normalized signal
Detection Pval

Data table
ID_REF VALUE Detection Pval
10181072_239_rc-S 15.18831814 0.39627329
10181072_290-S 16.57875215 0.3068323
10181072_290_rc-S 15.37210848 0.38322981
10181072_311-S 14.93810844 0.41118012
10181072_311_rc-S 11.05856505 0.79627329
10181072_418-S 9.906694002 0.89937888
10181072_418_rc-S 14.7807166 0.42360248
10181072_486-S 8.890749171 0.97080745
10181072_486_rc-S 10.69240761 0.82795031
17974913_3385-S 18.98877508 0.19813665
17974913_3385_rc-S 12.49823634 0.64782609
17974913_3999_rc-S 9.006190802 0.96024845
17974913_4071-S 12.63558903 0.63291925
17974913_4071_rc-S 11.15677242 0.78881988
17974913_4426-S 12.49823634 0.64720497
17974913_4426_rc-S 12.79345124 0.61614907
17974913_4962-S 9.67294032 0.91801242
17974913_4962_rc-S 13.5722792 0.52795031
18S_rRNA_X00686_301-S 5559.017023 0
18S_rRNA_X00686_523-S 1579.13369 0

Total number of rows: 45992

Table truncated, full table size 1853 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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