|
Status |
Public on Mar 08, 2009 |
Title |
Lactb-M11LC |
Sample type |
RNA |
|
|
Source name |
Strain: FVB wildtype gender:male, age: 23 weeks, tissue: liver
|
Organism |
Mus musculus |
Characteristics |
Liver, 6% fat diet, 12 weeks Liver, 6% fat diet, 12 weeks
|
Treatment protocol |
Mice were fed a 6% fat chow diet from 11 weeks of age until sacrifice at 23 weeks of age.
|
Growth protocol |
These mice were fed a 4% fat chow diet until 11 weeks of age.
|
Extracted molecule |
total RNA |
Extraction protocol |
Liver tissues were homogenized and total RNA extracted using Trizol reagent (Invitrogen, CA) according to the manufacturer’s instructions. RNA samples were isolated from liver tissues using a Qiagen RNeasy Kit and quality-checked with an Agilent 2100 Bioanalyzer (Foster City, CA).
|
Label |
biotin
|
Label protocol |
RNA samples queued for whole genome analysis using Illumina gene expression chips are first quanted using the ribogreen RNA quantitation kit. Samples are normalized to 11 ng per ul. 100 ng of normalized total RNA is used as a template for the synthesis of cDNA using Ambion cDNA synthesis kit AMIL1791. Newly synthesized cDNA becomes the template for the amplification and biotinylation of cRNA . Labeled cRNA is quanted (ribogreen) and normalized to 77 ng per ul.
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|
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Hybridization protocol |
800 ng of labeled cRNA product is hybridized to prepared whole genome arrays and allowed to incubate overnight ( 16 –20 hrs) at 55 degrees C. Arrays are washed then stained with Cy3 labeled streptavadin. Excess stain is removed by washing and the arrays are dried and scanned on an Illumina BeadScan con-focal laser scanner.
|
Scan protocol |
Scanning was performed using Illumina BeadScan con-focal laser scanner.
|
Description |
None
|
Data processing |
Data were scaled and normalized using the rank invariant method in the Beadstudio software v. 1.5.1.3. (Illumina Inc.)
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|
|
Submission date |
Jul 03, 2008 |
Last update date |
Mar 04, 2009 |
Contact name |
Josh Deignan |
E-mail(s) |
jdeignan@mednet.ucla.edu
|
Organization name |
UCLA
|
Department |
Cardiology
|
Lab |
Aldons J. Lusis
|
Street address |
675 Charles E Young Dr South, MRL 3220
|
City |
Los Angeles |
State/province |
CA |
ZIP/Postal code |
90024 |
Country |
USA |
|
|
Platform ID |
GPL4865 |
Series (2) |
GSE11999 |
Lactb male transgenic liver expression vs FVB male wildtype control |
GSE12000 |
Obesity study in transgenic and knockout animals |
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