Figure 1.
An example of genome evolution and TOGs.
(a) The species tree for four species: . (b) An example of genome evolution for the four species in (a). (c) The TOG for genes
in (b). (d) The TOG for genes
in (b). (e) The TOG for gene
in (b). Note that, in this paper, we will only be interested in ortholog groups containing at least two genes, and singleton ortholog groups will be ignored since they consist of only inparalogs from individual genomes. (f) The TOG for genes
in (b). (g) An example of a TOG labeling. The labeling suggests two ortholog groups in the TOG, one consisting of two genes from the two leftmost species and the other two genes from the last three species.
Figure 2.
An outline of MultiMSOAR 2.0.
Figure 3.
Comparison of MultiMSOAR 2.0 and MultiParanoid on simulated data.
(a) Simulation results on the parameter set where the parameter
is varied. (b) Simulation results on the parameter set
where the parameter
is varied. (c) Simulation results on the parameter set
where the parameter
is varied. (d) Simulation results on the parameter set
where the parameter
is varied.
Table 1.
Performance of the four programs on human, mouse and rat.
Table 2.
Ortholog groups shared by MultiMSOAR 2.0, MultiParanoid and Ensembl on the seven mammalian genomes.