Species phylogenetic trees represent the evolutionary processes of organisms, and they are
fundamental in evolutionary research. Therefore, new methods have been developed to …

Orthologs are widely used for phylogenetic analysis of species; however, identifying
genuine orthologs among distantly related species is challenging, because genes obtained …

Phylogenetic reconstruction aims at finding plausible hypotheses of the evolutionary history
of genes or species based on genomic sequence information. The distinction of orthologous …

Prediction of orthologs (homologous genes that diverged because of speciation) is an
integral component of many comparative genomics methods. Although orthologs are more …

Identifying orthologs continues to be an early and imperative step in genome analysis but
remains a challenging problem. While synteny (conservation of gene order) has previously …

Background Identifying orthologous genes is an initial step required for phylogenetics, and it
is also a common strategy employed in functional genetics to find candidates for functionally …

The microbial genome database for comparative analysis (MBGD)(available at http://mbgd.
genome. ad. jp/) is a comprehensive ortholog database for flexible comparative analysis of …

Background Orthologs (genes that have diverged after a speciation event) tend to have
similar function, and so their prediction has become an important component of comparative …

Background Identification of ortholog groups is a crucial step in comparative analysis of
multiple genomes. Although several computational methods have been developed to create …

Motivation Orthologous gene identification is fundamental to all aspects of biology. For
example, ortholog identification between species can provide functional insights for genes of …