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Cover A novel strategy for identifying functionally related proteins, which supplements sequence-based comparisons with information on conserved protein–protein interactions. Orthologs (same color nodes in different networks) are determined using sequence-based methods when the two protein interaction networks are compared (magenta links). Functionally related protein pairs are identified by systematic comparison of their interaction network neighborhoods. (Cover illustration by Kris Keeker [For details, see Bandyopadhyay et al., pp. 428–435.])

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