Efficiently sparse listing of classes of optimal cophylogeny reconciliations.
Algorithms Mol Biol
; 17(1): 2, 2022 Feb 15.
Article
en En
| MEDLINE
| ID: mdl-35168648
BACKGROUND: Cophylogeny reconciliation is a powerful method for analyzing host-parasite (or host-symbiont) co-evolution. It models co-evolution as an optimization problem where the set of all optimal solutions may represent different biological scenarios which thus need to be analyzed separately. Despite the significant research done in the area, few approaches have addressed the problem of helping the biologist deal with the often huge space of optimal solutions. RESULTS: In this paper, we propose a new approach to tackle this problem. We introduce three different criteria under which two solutions may be considered biologically equivalent, and then we propose polynomial-delay algorithms that enumerate only one representative per equivalence class (without listing all the solutions). CONCLUSIONS: Our results are of both theoretical and practical importance. Indeed, as shown by the experiments, we are able to significantly reduce the space of optimal solutions while still maintaining important biological information about the whole space.
Texto completo:
1
Colección:
01-internacional
Base de datos:
MEDLINE
Tipo de estudio:
Prognostic_studies
Idioma:
En
Revista:
Algorithms Mol Biol
Año:
2022
Tipo del documento:
Article
País de afiliación:
Francia
Pais de publicación:
Reino Unido