functions as the substrate recognition component of an E ubiquitin ligase

To evaluate the functional relationships of these genes more closely, we used Ingenuity Pathways Analysis to create a net work of the genes shown in Fig6. Only those genes that showed direct relationships among gene sets supplier CNX-2006 were contained in the network. Dotted lines represent connections be tween the gene models shaded in light-blue and orange, showing possible mechanisms through which the presence of the receptor triggers genes associated with and apoptotic responses. For example, Stat1 was previously proven to produce Irf1, and Real induces phrase. In general, the signaling pathways that occur to initiate an inam receptor. We then created still another gene established that contained genes that were at least 2 collapse upregulated among all cell types. Analysis with this gene set allowed us to ascertain which genes were activated independently of the receptor. This sort of analysis was then repeated for infections with the WSN and r1918 ranges of inuenza virus, and the gene sets from the three separate analyses for each virus were merged. We then performed an operating Immune system analysis of those gene sets by using Ingenuity Pathways Analysis. The top-ranked func tional categories, based on the P value of the enrichment investigation, of the set containing genes up-regulated only in wild-type and R MEFs were associated with the interferon response, containing genes including Irf5, Irf7, Mx1, Mx2, and Oas3. The most effective functional categories of the set containing genes up-regulated among all four cell types were related to inam matory and apoptotic pathways, such as Ccl5, Il6, Irf1, Il1b, and Tnf. Genes from these groups were chosen and are pre sented in Fig. 6 and in Fig. S1 and S2 within the supple mental content. The gene expression data show that particular response genes do not need to be induced for the induction supplier SCH772984 of genes linked to and apoptotic responses, other potential mechanisms for the induction of these genes in the absence of the receptor are described below. Nevertheless, the enhanced level of induction of these response genes in wild type and Kiminas MEFs is correlated with decreased viral replication, without the induction of these matoryor apoptotic response in the existence of the receptor are popular. To find out possibly new mech anisms for the induction the same and apoptotic reaction genes in the absence of the receptor, we included genes that were at least 2 flip up-regulated only in Rand RMEFs although not in WT and RMEFs during any of the three types of viral infection. Solid lines represent interactions between gene sets in yellow and orange or within the emerge orange. Of particular interest are Ing1 and Nr4a1, which induce apoptosis via Mdm2, and Polr2a, which induces apoptosis via Myc. Since the primary mechanisms for how they might initiate or apoptotic responses and interact with lots of the genes in fruit are not yet known the genes in orange are around the periphery of the network diagram.