Author: Bahir, Iris; Fromer, Menachem; Prat, Yosef; Linial, Michal
Title: Viral adaptation to host: a proteome-based analysis of codon usage and amino acid preferences Document date: 2009_10_13
ID: 629kl04a_62
Snippet: For each partition of the host taxonomy that we considered, we included a virus in the calculations only if there was not more than one taxonomic class that it is capable of infecting. Formally, for each virus v, define h(v) to be the set of host species that it can infect. And, let C 1 , y, C k be a disjoint partition of the host organisms under study. Now, for a particular virus v, consider the least common ancestor (LCA) of the host species of.....
Document: For each partition of the host taxonomy that we considered, we included a virus in the calculations only if there was not more than one taxonomic class that it is capable of infecting. Formally, for each virus v, define h(v) to be the set of host species that it can infect. And, let C 1 , y, C k be a disjoint partition of the host organisms under study. Now, for a particular virus v, consider the least common ancestor (LCA) of the host species of v in the host taxonomic tree: LCA(h(v)). If there exists a single cluster C i (1pipk) such that LCA(h(v)) is a descendant of C i (possibly C i itself), then we uniquely map virus v to be among the viruses that infect the taxonomic sub-tree rooted at C i .
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