Accurate gene-tree reconstruction by learning gene- and species-specific substitution rates across multiple complete genomes.

@article{Rasmussen2007AccurateGR,
  title={Accurate gene-tree reconstruction by learning gene- and species-specific substitution rates across multiple complete genomes.},
  author={Matthew D. Rasmussen and Manolis Kellis},
  journal={Genome research},
  year={2007},
  volume={17 12},
  pages={1932-42}
}
Comparative genomics provides a general methodology for discovering functional DNA elements and understanding their evolution. The availability of many related genomes enables more powerful analyses, but requires rigorous phylogenetic methods to resolve orthologous genes and regions. Here, we use 12 recently sequenced Drosophila genomes and nine fungal genomes to address the problem of accurate gene-tree reconstruction across many complete genomes. We show that existing phylogenetic methods… CONTINUE READING
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