TLR4- or FcϵRI-mediated gene expression profiles in human MCs. Human MCs were precultured with or without IFN-γ and then exposed to LPS for 2 hours (A) and 6 hours (B). Positive control cells were precultured with IgE and then activated with anti-IgE for 2 (A) and 6 hours (B). RNA was collected and used to conduct GeneChip analysis. Each experiment contained 1 or 2 independent donors, and each experiment was repeated using different sets of donors. The data are the average of 2 separate analyses. (A-B) Overlapping sets of LPS-, IFN-γ plus LPS-, and anti-IgE-regulated genes. Numbers in the overlapping region of the Venn diagram represent shared regulated genes. Numbers of LPS-, IFN-γ plus LPS-, or anti-IgE-specific genes are shown inside the stippled circles. Stimulus-specific genes were selected if the ratio of the relative expression level between stimuli was larger than 2.0, or if the data passed a stringent stimulus-specific filter based on the score. See the Supplemental Data Sets link at the top of the article on the Blood website. (C) Representation of mRNA expression levels in control MCs, LPS-stimulated MCs, IFN-γ-treated MCs, and LPS plus IFN-γ-stimulated MCs. One row of colored bars represents one gene, and each column represents one stimulus. Color bars capture the magnitude of the response for each gene, according to the scale shown. Genes are placed in groups corresponding to pair-wise overlaps shown in the accompanying Venn diagrams. From top to bottom: IFN-γ plus LPS-specific genes; LPS-specific genes; and IFN-γ-inducible genes. Ci indiates a set of genes that were up-regulated by pretreatment of IFN-γ following incubation with medium for 2 hours, but it waned during subsequent incubation with medium for 6 h. (Cii) a set of genes that were up-regulated by LPS for 2 hours, but decreased at 6 hours. (Ciii) a set of genes that were at the basal level at 2 hours under all conditions, but up-regulated by LPS at 6 hours in IFN-γ-pretreated cells.