Pathway databases interaction network

The experimental exploration and confirmation of protein functions are relatively slow processes and always require dedicated experiments. The analysis of protein-protein associations as such improved remarkably in quality and speed. This is accompanied by the creation of new databases that will reflect the network of interacting proteins (the Protein Function and Metabolic Pathway project, http //bioinformer.ebi. ac.uk 80/newsletter/archives/4/pfmp.html, and the Biomolecular Interaction Network Database project http //bioinfo.mshri.on.ca/ BIND/). These activities contribute to the idea that cellular mechanisms can be better understood when they are seen as a multicomponent networked process. 

Table 1 describes all the microbe-specific databases, and Table 2 lists databases for the microbial community. These databases provide genomic sequence data, gene and protein information, gene expression data, metabolic reactions and pathways, interaction network,... 

With the development of protein-protein and protein-DNA interaction databases, gene expression data can be mapped onto interaction networks to identify relevant biologic pathways active in specific disease states or experimental perturbations. This type of approach is useful for assigning disease-specific relevance to differentially expressed genes or molecular pathways and has been applied in several human diseases, most notably cancer. Although these interaction networks are very useful tools for visualizing large data sets, they are not computable, predictive network models, which are those that hold... 

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