Live neighbor-joining
I tiakina i:
| Kaituhi matua: | |
|---|---|
| Rā whakaputa: | 2018 |
| Ētahi atu kaituhi: | , , , |
| Hōputu: | Article |
| Reo: | eng |
| Puna: | Repositório Institucional da UnB |
| Download full: | http://repositorio.unb.br/handle/10482/32105 https://doi.org/10.1186/s12859-018-2162-x |
Whakarāpopototanga: | Background: In phylogenetic reconstruction the result is a tree where all taxa are leaves and internal nodes are hypothetical ancestors. In a live phylogeny, both ancestral and living taxa may coexist, leading to a tree where internal nodes may be living taxa. The well-known Neighbor-Joining heuristic is largely used for phylogenetic reconstruction. Results: We present Live Neighbor-Joining, a heuristic for building a live phylogeny. We have investigated Live Neighbor-Joining on datasets of viral genomes, a plausible scenario for its application, which allowed the construction of alternative hypothesis for the relationships among virus that embrace both ancestral and descending taxa. We also applied Live Neighbor-Joining on a set of bacterial genomes and to sets of images and texts. Non-biological data may be better explored visually when their relationship in terms of content similarity is represented by means of a phylogeny. Conclusion: Our experiments have shown interesting alternative phylogenetic hypothesis for RNA virus genomes, bacterial genomes and alternative relationships among images and texts, illustrating a wide range of scenarios where Live Neighbor-Joining may be used. |
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