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. 2005 Aug;138(4):1914–1925. doi: 10.1104/pp.105.060863

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Copyright © 2005, American Society of Plant Biologists

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Figure 4. — The systems approach module of the DPBE system. Analysis of an association network generated from DPBE, based on 3,221 PubMed abstracts related to 22 genes identified from a transcript profiling experiment of the stress regulator DREB1A (Maruyama et al., 2004). A, Part of network 3 with setting of one link per node is boxed to highlight the RD29A associations. Note the large number of genes belonging to different biological pathways that show association with the common stress-responsive gene RD29A. The portions of the network from above and below the RD29A node are connected here with dashed arrows. The full network is presented in Supplemental Figure 5. B, A biological network of gene expressions in relation to RD29A expression is shown here. Color-coded entities in the linked abstracts of the DPBE association network were put into the five bins, represented by the ovals. Their relationships to each other and with RD29A (such as up/down-regulation, coregulated) were then superimposed. The numbers in the boxes refer to the publications that are provided in the “Examples” section at the DPBE Web site. The asterisks mark the genes that were present in the list of 22 input gene names. Note the additional gene associations identified by the DPBE system.

Figure 4. — The systems approach module of the DPBE system. Analysis of an association network generated from DPBE, based on 3,221 PubMed abstracts related to 22 genes identified from a transcript profiling experiment of the stress regulator DREB1A (Maruyama et al., 2004). A, Part of network 3 with setting of one link per node is boxed to highlight the RD29A associations. Note the large number of genes belonging to different biological pathways that show association with the common stress-responsive gene RD29A. The portions of the network from above and below the RD29A node are connected here with dashed arrows. The full network is presented in Supplemental Figure 5. B, A biological network of gene expressions in relation to RD29A expression is shown here. Color-coded entities in the linked abstracts of the DPBE association network were put into the five bins, represented by the ovals. Their relationships to each other and with RD29A (such as up/down-regulation, coregulated) were then superimposed. The numbers in the boxes refer to the publications that are provided in the “Examples” section at the DPBE Web site. The asterisks mark the genes that were present in the list of 22 input gene names. Note the additional gene associations identified by the DPBE system.