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Figure 3 | BMC Genomics

Figure 3

From: In silico discovery of transcription regulatory elements in Plasmodium falciparum

Figure 3

GEMS and MDScan random permutation analyses. a) log10P enrichment score distribution of motif candidates derived from GEMS analysis of the upstream regions of genes contained within Sexual Development cluster (GO:GNF0004) (red). For comparison, the log10P enrichment score distribution of motif candidates derived from GEMS analysis of 100 randomly selected sets of promoter sequences are also plotted (blue) representing the p-value range that is obtainable by chance, i.e. potential false positives. log10P values for the top 20 motifs from GEMS analysis of the Sexual Development cluster all fall below those obtainable by random simulations. b) MAP score distribution of motif candidates derived from MDScan analysis of the Sexual Development cluster (GO:GNF0004) (red). Again, for comparison, the MAP score distribution of motif candidates derived from MDScan analysis of 100 randomly selected sets of promoter sequences are also plotted (blue) representing the MAP score range that is obtainable by chance. MAP scores for motifs obtained using MDScan analysis of the Sexual Development cluster do not distance themselves from those obtained in random simulations suggesting the potential for many false positives in MDScan motif discovery.

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