Figure 2.

Venn diagrams showing the overlap between differentially expressed genes in the rhizosphere. (a) Down-regulated and (b) up-regulated genes resulting from the individual analysis of each experiment: rhizosphere versus LB exponentially growing cells (Rhi/Log), rhizosphere versus LB stationary phase cells (Rhi/St), and rhizosphere versus sessile cells in microcosm without plant (Rhi/Microcosm). Common genes were clustered automatically with a freely available informatics tool [48]. (c) The result of the combined analysis of the three experiments before and after applying adjustments in the P value. Out of the 57 Bonferroni genes, 54 are included in the 90 overlapping rup genes.

Matilla et al. Genome Biology 2007 8:R179   doi:10.1186/gb-2007-8-9-r179
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