### Abstract

Group-based models arise in algebraic statistics while studying evolution processes. They are represented by embedded toric algebraic varieties. Both from the theoretical and applied point of view one is interested in determining the ideals defining the varieties. Conjectural bounds on the degree in which these ideals are generated were given by Sturmfels and Sullivant (2005) [25, Conjectures 29, 30]. We prove that for the 3-Kimura model, corresponding to the group G = Z(2) X Z(2), the projective scheme can be defined by an ideal generated in degree 4. In particular, it is enough to consider degree 4 phylogenetic invariants to test if a given point belongs to the variety. We also investigate G-models, a generalization of abelian group-based models. For any G-model, we prove that there exists a constant d, such that for any tree, the associated projective scheme can be defined by an ideal generated in degree at most d. (C) 2013 Elsevier Inc. All rights reserved.

Original language | English |
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Pages (from-to) | 1672-1694 |

Number of pages | 23 |

Journal | Journal of Combinatorial Theory Series A |

Volume | 120 |

Issue number | 7 |

DOIs | |

Publication status | Published - Sep 2013 |

MoE publication type | A1 Journal article-refereed |

### Keywords

- Group-based model
- 3-Kimura
- Phylogenetic invariant
- Toric variety
- PHYLOGENETIC INVARIANTS
- NUCLEOTIDE-SEQUENCES
- TORIC IDEALS
- VARIETIES
- TREES
- FINITENESS
- GEOMETRY

## Cite this

*Journal of Combinatorial Theory Series A*,

*120*(7), 1672-1694. https://doi.org/10.1016/j.jcta.2013.06.003