Low degree minimal generators of phylogenetic semigroups

DOI10.1007/S40879-014-0011-7MaRDI QIDQ2340967zbMATH OpenOpenAlexFDO

Authors Kaie Kubjas

Publication date 21 April 2015

Published in European Journal of Mathematics (Search for Journal in Brave)

Full work available at URL https://arxiv.org/abs/1304.0744

zbMATH Keywords

graph labelingsconformal block algebrasHilbert basissemigroup generatorsJukes-Cantor binary modelphylogenetic semigroups

Mathematics Subject Classification ID

Toric varieties, Newton polyhedra, Okounkov bodies (14M25) Lattice polytopes in convex geometry (including relations with commutative algebra and algebraic geometry) (52B20) Applications of commutative algebra (e.g., to statistics, control theory, optimization, etc.) (13P25) Applications of vector bundles and moduli spaces in mathematical physics (twistor theory, instantons, quantum field theory) (14D21) Commutative semigroups (20M14)

Abstract: The phylogenetic semigroup on a graph generalizes the Jukes-Cantor binary model on a tree. Minimal generating sets of phylogenetic semigroups have been described for trivalent trees by Buczy'nska and Wi'sniewski, and for trivalent graphs with first Betti number 1 by Buczy'nska. We characterize degree two minimal generators of the phylogenetic semigroup on any trivalent graph. Moreover, for any graph with first Betti number 1 and for any trivalent graph with first Betti number 2 we describe the minimal generating set of its phylogenetic semigroup.

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• On the graph labellings arising from phylogenetics
• Finite phylogenetic complexity and combinatorics of tables
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Cites work

• Bohr-Sommerfeld orbits in the moduli space of flat connections and the Verlinde dimension formula
• Fusion rules and modular transformations in 2D conformal field theory
• On geometry of binary symmetric models of phylogenetic trees
• On the graph labellings arising from phylogenetics
• Phylogenetic invariants for group-based models
• Phylogenetic toric varieties on graphs
• Sagbi bases of Cox-Nagata rings
• The algebra of \(\mathrm{SL}_3(\mathbb{C})\) conformal blocks

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• On the graph labellings arising from phylogenetics

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