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Figure 6 | BMC Bioinformatics

Figure 6

From: Transcription factor target prediction using multiple short expression time series from Arabidopsis thaliana

Figure 6

Characteristics of predicted regulons. Boxplots of characteristics of predicted regulon. The number of over-represented functional annotations and over-represented hexamers 500 nucleotides upstream in the top 100–500 predicted genes for a selection of transcription factors were counted for each method. The results are shown from both induction mode (A) and (B) repression mode. Truly co-regulated genes share cis-regulatory elements in their promoters and are also likely to share biological function. Due to hexamer redundancy, motif interactions and parallel TF pathways, a higher number of enriched hexamers and functional annotations therefore indicate a higher probability that a group of genes actually is co-regulated. Compared to the previously described methods ACT (Arabidopsis Co-expression tool), Cor (Pearson correlation), the covariance based methods CERMT-0 and CERMT extract genes with more over-represented hexamers and functional annotations.

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