Fig. 3

“Clustergram” of periodically arranged Lrp target genes. In this type of plot, the horizontal axis spans the “phase” in bp (equals the period length) and the modulo period coordinates of each feature are unrolled along it. By this visualisation, “in-phase” genomic features will appear quasi-aligned vertically and denoted as a cluster. The figure depicts the clustering by specifying each cluster by a different colour and un-clustered data as grey points of target genes of Lrp for the significant period of 14,830 bp. The left vertical axis shows the genomic feature name and its coordinate. The right vertical axis shows the positional score of each feature (a measure of how much each individual feature has contributed to the significance of this period). Genomic features with high positional score are more likely to be members of a cluster and may provide evidence for spatial co-localisation of clustered genes. (The plot was generated by 25 Lrp target genes, period 14830, clustering exponent 0.5 and minimum cluster size 2)