MLGO: phylogeny reconstruction and ancestral inference from gene-order data |
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Authors: | Fei Hu Yu Lin Jijun Tang |
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Institution: | .Tianjin Key Laboratory of Cognitive Computing and Application, Tianjin University, Tianjin, 300072 China ;.Department of Computer Science and Engineering, University of South Carolina, Columbia, 29208 SC USA ;.Department of Computer Science and Engineering, University of California, San Diego, 92093 La Jolla CA USA |
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Abstract: | BackgroundThe rapid accumulation of whole-genome data has renewed interest in the study of using gene-order data for phylogenetic analyses and ancestral reconstruction. Current software and web servers typically do not support duplication and loss events along with rearrangements.ResultsMLGO (Maximum Likelihood for Gene-Order Analysis) is a web tool for the reconstruction of phylogeny and/or ancestral genomes from gene-order data. MLGO is based on likelihood computation and shows advantages over existing methods in terms of accuracy, scalability and flexibility.ConclusionsTo the best of our knowledge, it is the first web tool for analysis of large-scale genomic changes including not only rearrangements but also gene insertions, deletions and duplications. The web tool is available from http://www.geneorder.org/server.php. |
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Keywords: | Phylogeny reconstruction Ancestral inference Genome rearrangement Maximum likelihood |
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