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Fig. 3 | BMC Medical Genomics

Fig. 3

From: Gene expression profiling of the human natural killer cell response to Fc receptor activation: unique enhancement in the presence of interleukin-12

Fig. 3

FcR activation in the presence of IL-12 results in differential expression of a unique subset of genes. a Human NK cells were isolated from peripheral blood and cultured with immobilized IgG, IL-12, or IgG and IL-12. Following stimulation, culture supernatants were harvested and levels of cytokines were analyzed by ELISA. Genomewide expression profiling was performed for NK cells derived from all 8 samples via microarray, and representative transcript expression levels were validated using Real-time RT-PCR. The bioinformatics portion of this study utilized a set of genes that exhibited the greatest expression level differences as reported by microarray. Functional enrichment analysis generated an integrated network of structural interactions among differentially expressed genes. Canonical pathway interactions were mapped using IPA. Select genes within top enriched GO functional categories were validated using Real-time RT-PCR (dotted line). b Hierarchical clustering based on the expression profile of genes that were up- or down-regulated by at least 2-fold across all samples. Each row represents relative hybridization intensities of a particular gene across different samples. Colors reflect the magnitude of relative expression of a particular gene across samples. Brighter green corresponds to higher expression and brighter red corresponds to lower expression. The organization and length of the branches in the resulting dendrogram reflect the similarity in gene expression profiles between each of the samples. The division and length of the branches within the dendrogram reflect the relative similarity in gene expression profiles between each NK cell stimulation condition. The terminal branches that are close spatially in the dendrogram represent the NK cell conditions that have the most similar gene expression patterns. Venn diagrams generated by the intersection of the list of genes (c) up-regulated or (d) down-regulated by at least 2-fold vs. stimulation with medium alone are shown

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