Mouse endogenous control selection process.

<p>From 335 potential target miRNAs, 277 total miRNAs were expressed over all samples, and 72 miRNAs were expressed in all 20 samples. These 72 miRNAs were candidate endogenous controls, following a series of statistical analyses only five genes (miR-146a, miR-16, miR-195, miR-30e, and miR-744) passed the criteria of ANOVA <i>p</i>>0.3, SD<1, and pair-wise |ΔΔ<i>C</i>_T|<0.5.</p

Five serum miRNAs as endogenous references stably expressed across different mouse strains.

<p>−ΔC_T values of miR-146a, miR-16, miR-195, miR-30e, and miR-744 show stability across all samples (w = weeks). The −ΔC_T average of all five miRNAs is also displayed. Each gene is expressed across all samples, has an ANOVA <i>p</i>>0.3, an SD<1 and all pair-wise |ΔΔC_T|<0.5.</p

MammU6 is differentially expressed in the different mouse strains.

<p>Bar plots of the average MammU6 expression for each mouse strain are given with standard error bars. An ANOVA comparison detects a significant difference in the means, <i>p</i>-value of 0.049, an LSD <i>p</i>-value of 0.023 (B6 vs. NOD), and common SD of 2.4.</p

Heat map for genes differentially expressed among the four groups of T cells

Only those genes with a FDR (q) ≤0.01 and fold change ≥5 are included in this map. Data for each gene are standardized separately before being plotted, as is standard in drawing heat maps, so that all genes have a similar scale and the relative differences for all genes can be visualized on a single plot.<p><b>Copyright information:</b></p><p>Taken from "The IL-10 and IFN-γ pathways are essential to the potent immunosuppressive activity of cultured CD8NKT-like cells"</p><p>http://genomebiology.com/2008/9/7/R119</p><p>Genome Biology 2008;9(7):R119-R119.</p><p>Published online 29 Jul 2008</p><p>PMCID:PMC2530876.</p><p></p

The role of IL-10 and IFN-γ in the generation and function of the CD8NKT-like cells

Cytokine levels in the cell culture media. Cultured CD8NKT-like cells and freshly isolated CD4CD25Treg cells were stimulated with anti-CD3 (1.5 μg/ml) and splenic APCs. At 72 h of culturing, the culture supernatant was saved and used for measuring IL-10, IL-4 and IFN-γ using ELISA. Results are representative of two independent experiments. Suppression activity of CD8NKT-like cells cultured from IFN-γand IL-10mice. CD8NKT-like cells (Tr) cultured from knockout mice and wild-type B6 (WT) mice were co-cultured with naïve CD4CD25responder T cells (Tn) at different Tr/Tn ratios in the presence of splenic APCs and anti-CD3. The cultures were pulsed with 1 μCi/well of [H]thymidine at 72 h and proliferation (cpm) was measured by [H]thymidine incorporation in the last 16 h. Results are expressed as the mean of triplicate cultures. ANOVA -values are <p><b>Copyright information:</b></p><p>Taken from "The IL-10 and IFN-γ pathways are essential to the potent immunosuppressive activity of cultured CD8NKT-like cells"</p><p>http://genomebiology.com/2008/9/7/R119</p><p>Genome Biology 2008;9(7):R119-R119.</p><p>Published online 29 Jul 2008</p><p>PMCID:PMC2530876.</p><p></p

Molecular network for the highly upregulated immunity and defense genes

The network was created by extracting the direct interactions between these genes from the literature. Three types of relationship are shown in the pathway, binding, expression and regulation. Binding refers to physical interactions between molecules. Expression indicates that the regulator changes the protein level of the target by means of regulating its gene expression or protein stability. Regulation indicates that the regulator changes the activity of the target; the mechanism of the regulation is either unknown or has not been specified in the sentence describing the relationship. This network highlights the importance of two key nodes, IFN-γ and IL-10, which regulate many genes in this network. These genes are also critical for the immunosuppressive function of the CD8 NKT-like cells.<p><b>Copyright information:</b></p><p>Taken from "The IL-10 and IFN-γ pathways are essential to the potent immunosuppressive activity of cultured CD8NKT-like cells"</p><p>http://genomebiology.com/2008/9/7/R119</p><p>Genome Biology 2008;9(7):R119-R119.</p><p>Published online 29 Jul 2008</p><p>PMCID:PMC2530876.</p><p></p