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The Basic Local Alignment Search Tool (BLAST) is one of the best known sequence comparison programs available in bioinformatics. It is used to compare query sequences to a set of target sequences, with the intention of finding similar sequences in the target set. Here, we present a distributed BLAST service which operates over a set of heterogeneous Grid resources and is made available through a Globus...
We consider the problem of selecting and tuning learning parameters of support vector machines, especially for the classification of large and unbalanced data sets. We show why and how simple models with few parameters should be refined and propose an automated approach for tuning the increased number of parameters in the extended model. Based on a sensitive quality measure we analyze correlations...
We describe an approach to clustering the yeast protein-protein interaction network in order to identify functional modules, groups of proteins forming multi-protein complexes accomplishing various functions in the cell. We have developed a clustering method that accounts for the small-world nature of the network. The algorithm makes use of the concept of k-cores in a graph, and employs recursive...
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