Research
The contributions of normal variation and genetic background to mammalian gene expression
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* Corresponding author: Peter S Nelson pnelson@fhcrc.org
1 Divisions of Human Biology, Fred Hutchinson Cancer Research Center, Seattle, WA, 98109, USA
2 Clinical Research, Fred Hutchinson Cancer Research Center, Seattle, WA, 98109, USA
3 Public Health Sciences, Fred Hutchinson Cancer Research Center, Seattle, WA, 98109, USA
Genome Biology 2006, 7:R26 doi:10.1186/gb-2006-7-3-r26
Published: 31 March 2006Additional files
Additional File 1:
The normalized log ratios, F-values, q-values, and mean squares for the 2,382 genes assessed in the unpooled analysis
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Additional File 2:
Supplemental Table 1 shows the analysis of variance for the mixed effect model. Supplemental Table 2 shows selected genes with variable expression within mouse strains. Supplemental Figure 1, titled 'F-values are independent of intensity', shows plots of F-values versus intensity for each of the 2,383 genes analyzed both within and between strains. Supplemental Figure 2, titled 'Quantitative RT-PCR analysis on replicate mice confirms the expression variability patterns of ApoA4, Dnase2a and Socs2', shows transcript abundance measurements from independent RNA preparations from the same liver samples compared across different mice of different strains. Supplemental Figure 3, titled 'Comparisons of variances associated with array, mouse, and strain', shows the numbers of variable genes at specific average fold-changes across different mouse strains.
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