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. 2010 Feb 3;5(2):e8938. doi: 10.1371/journal.pone.0008938

Figure 3. Effect of adding orthologs with distinct phylogenetic distances on motif detection in the combined space.

Figure 3

Results are displayed on the retrieval of a low IC motif in a synthetic dataset. Panel (A) shows the results for the coregulation space that consists of ten coregulated reference genes. The remaining panels represent the results for the combined space that consists of the ten coregulated reference genes together with their orthologs, also referred to as ten orthologous sets. Each orthologous set consists of five prealigned sequences related through an equal star topology: the reference sequence with proximity 0.80 and four equally distant sequences with proximities of respectively 0.90 (B), 0.50 (C) and 0.20 (D). For the measures D1, D1*RR, PPV and Sens see Figure 2.