strain: C57BL/6 Sex: Female age: 3-weeks old genotype: WT
Growth protocol
At 21 days of age, mice were weaned onto an enriched diet (9F Sterilizable Rodent Diet 7960, Harlan Teklad, Madison, WI) and were provided a Colyte solution (peg-3350 & electrolytes for oral solution – Schwarz Pharma, Milwaukee, WI) in place of water at half-strength since at full strength it causes adverse effects in non-CF mice. Mice were sacrificed at 23 days.
Extracted molecule
total RNA
Extraction protocol
Total RNA was extracted using the RNeasy Midi kit (Qiagen Inc, Valencia, CA. DNase treatment was performed in the column prior to elution. Biotin labeled cRNA was prepared uisng Illumina TotalPrep RNA Amplification kit (Applied Biosystems/Ambion, Austin, TX).
Label
Cy3
Label protocol
Samples were labeled with Cy3 following Illumina's protocol
Hybridization protocol
cRNA was hybridized to Beadchips following Illumina's instructions
Scan protocol
Beadchips were scanned using Illumina BeadArray Reader
Description
lipid synthesis, nutrition, adipose storage
Data processing
Data was initially processed with Illumina GenomeStudio software to assess quality control. Raw data was transferred to Integromics Biomarker Discovery for TIBCO Spotfire software (IBD, Madrid, Spain) where data was normalized using Illumina normalization: forcePositive as background correction, log2 as variance stabilization method, and quantile as the normalization method. Wild type group was used as the reference group.
