Fig. 4

Profiles of the genes in the clusters generated by methods when applied to dataset D83. This figure visually shows a sample of the results of each one of the methods when applied over the same dataset, which is the dataset D83 (Additional files 4 and 6: Tables S2 and S4). This dataset is the time-series dataset of which the numbers of clusters generated by the eight methods are more similar to each other than any other time-series dataset (measured by the least squares metric). D83 is a budding yeast dataset with the accession GSE72423 and was generated using the Affymetrix Yeast Genome 2.0 microarray. Cells were grown in selective media supplemented with dextrose as a pre-culture and then shifted to media containing ethanol as the sole carbon source. Samples were taken at 0, 0.5, 1, 4, and 12 h after medium transfer. The numbers of clusters generated for this dataset by clust, CC, k-means, SOMs, HC, MCL, Click, and WGCNA were 15, 2, 2, 2, 2, 6, 7, and 11, respectively. This figure shows all 15 clusters generated by clust in the first row. Then, the most similar clusters generated by the other methods to each one of the 15 clust’s clusters are aligned below them. The title of each sub-plot shows the name of the cluster and the number of genes in that cluster between parentheses. The horizontal axis of each sub-plot represents the five time-points in the dataset D83 while the vertical axis represents the normalized gene expression value. The profiles of all individual genes in a cluster are drawn as lines on top of each other in its corresponding sub-plot