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- Title
Predicting protein linkages in bacteria: which method is best depends on task.
- Authors
Karimpour-Fard, Anis; Leach, Sonia M; Gill, Ryan T; Hunter, Lawrence E
- Abstract
Applications of computational methods for predicting protein functional linkages are increasing. In recent years, several bacteria-specific methods for predicting linkages have been developed. The four major genomic context methods are: Gene cluster, Gene neighbor, Rosetta Stone, and Phylogenetic profiles. These methods have been shown to be powerful tools and this paper provides guidelines for when each method is appropriate by exploring different features of each method and potential improvements offered by their combination. We also review many previous treatments of these prediction methods, use the latest available annotations, and offer a number of new observations.
- Publication
BMC bioinformatics, 2008, Vol 9, p397
- ISSN
1471-2105
- Publication type
Journal Article
- DOI
10.1186/1471-2105-9-397