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JOURNAL ARTICLE

Support vector machines with profile-based kernels for remote protein homology detection

Steven Busuttil, John Abela, Gordon J Pace
Genome Informatics 2004, 15 (2): 191-200
15706505
Two new techniques for remote protein homology detection particulary suited for sparse data are introduced. These methods are based on position specific scoring matrices or profiles and use a support vector machine (SVM) for discrimination. The performance on standard benchmarks outperforms previous non-discriminative techniques and is comparable to that of other SVM-based methods while giving distinct advantages.

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