PMID:21989079
| Citation |
Pejaver, VR and Kim, S (2011) Gene Cluster Profile Vectors: a method to infer functionally related gene sets by grouping proximity-based gene clusters. BMC Genomics 12 Suppl 2:S2 |
|---|---|
| Abstract |
Proximity-based methods and co-evolution-based phylogenetic profiles methods have been successfully used for the identification of functionally related genes. Proximity-based methods are effective for physically clustered genes while the phylogenetic profiles method is effective for co-occurring gene sets. However, both methods predict many false positives and false negatives. In this paper, we propose the Gene Cluster Profile Vector (GCPV) method, which combines these two methods by using phylogenetic profiles of whole gene clusters. The GCPV method is, currently, the only genome comparison based method that allows for the characterization of relationships between gene clusters based profiles of individual genes in clusters. |
| Links |
PubMed PMC3194233 Online version:10.1186/1471-2164-12-S2-S2 |
| Keywords |
Caulobacter crescentus/classification; Caulobacter crescentus/genetics; Chromosome Mapping/methods; Cluster Analysis; Computational Biology/methods; Escherichia coli/classification; Escherichia coli/genetics; Evolution, Molecular; Genes, Bacterial; Multigene Family; Operon; Phylogeny |
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