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Modular organization in the reductive evolution of protein-protein interaction networks

Javier Tamames1*, Andrés Moya1 and Alfonso Valencia2

Author Affiliations

1 Instituto Cavanilles de Biodiversidad y Biología Evolutiva, Universitat de València, 46071 Valencia, Spain

2 Structural and Computational Biology Programme, Spanish National Cancer Research Centre (CNIO), 28029 Madrid, Spain

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Genome Biology 2007, 8:R94  doi:10.1186/gb-2007-8-5-r94

Published: 28 May 2007

Additional files

Additional data file 1:

Table S1 lists the composition of the main modules in E. coli, for the modular decomposition of the Butland dataset using Guimerá's algorithm. Table S2 shows the different motifs with three or four nodes found in the real networks and randomized networks. Table S3 shows the results of the modular decomposition of the Butland dataset by means of a k-means clustering algorithm, as an additional confirmation of the validity of the results. Table S4 lists the main conserved hubs in Buchnera, and their functions in the Butland dataset.

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Open Data

Additional data file 2:

Relationship between the connectivity of the nodes and their deletion in Buchnera's network (Butland dataset), and the probability of the deletion of nodes as a function of the probable number of connections.

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Open Data

Additional data file 3:

Three examples of hub deletion in Buchnera.

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Open Data