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Figure 2 | BMC Bioinformatics

Figure 2

From: GOurmet: A tool for quantitative comparison and visualization of gene expression profiles based on gene ontology (GO) distributions

Figure 2

The GOurmet Cartography dendrogram and wave plot windows. Bottom left – the GOCART dendrogram plots all the expression profiles in a hierarchically clustered dendrogram using a modified Pearson's correlation to determine distances between clusters. A sliding bar allows the user to select how sub-clusters are colorized to visualize differences. The dendrogram can be exported as a jpeg. In the example, note how the three sample progenitor expression profiles (MeSC [32], NSC, and GEP) cluster together, and three of the four sample differentiated cell lineage expression profiles cluster together (mature blood, brain, and zymogenic cells [33]). Parietal cells, a highly specialized, differentiated, mitochondria-rich cell type cluster separately, well away from the other lineages. Numbers in brackets indicate reference from which each expression profile was acquired. Top – the GOCART wave diagram allows users to select GO terms (listed at the left of the window) to view their fractional representation among selected expression profiles (profiles to be viewed are selected from the dendrogram plot). Each GO term is automatically assigned a different color in the plot. In the example, note how much higher the fractional representation of the GO term "mitochondrion" (red line) is in parietal cells relative to the other sample expression profiles. The wave diagram can be output as a jpeg image.

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