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Figure 2 shows the main part of the map of "pathways in cancer".
(C ) Heat map of pathways that are significantly increased and decreased upon Ptf1a deletion.
Totally, the map of pathways supplies us a new viewpoint of functional organization at the level of network of networks.
This map of pathways is a network of networks, rather than the original background network of separate molecules.
The map of pathways was further reconstructed based on the selected pathway crosstalks, and the module organization among pathways was also detected.
Finally, the map of pathways consist of those selected pathway crosstalks, where a node represents a pathway and an edge represents a pathway crosstalk.
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The main pathway map of Pathway Projector was reconstructed from the popular KEGG Atlas layout by adding nodes for enzymes and genes.
The integrated pathway map of Pathway Projector is based on the widely used layout of the KEGG Atlas with the addition of nodes for genes and enzymes for the mapping of experimental data from transcriptomic, proteomic, and metabolomic experiments.
The default pathway map of Pathway Projector is the reference pathway map, but organism-specific pathway maps can be selected from a list of 870 organisms available from the Organism Selection tab located in the upper left section of the user interface (Figure 2a).
This allows us to generate a global map of pathway activity across cancers.
For the analysis and mapping of pathways of P. acnes KEGG and KEGG MAPPER were used (http://www.genome.jp/kegg/).jp/kegg/
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