Related papers: Constructive degree bounds for group-based models

In this paper we present geometric features of group based models. We focus on the 3-Kimura model. We present a precise geometric description of the variety associated to any tree on a Zariski open set. In particular this set contains all…

Motivated by phylogenetics, our aim is to obtain a system of equations that define a phylogenetic variety on an open set containing the biologically meaningful points. In this paper we consider phylogenetic varieties defined via group-based…

In this paper we investigate properties of algebraic varieties representing group-based phylogenetic models. We propose a method of generating many phylogenetic invariants. We prove that we obtain all invariants for any tree for the binary…

The space of n (ordered) points on the projective line, modulo automorphisms of the line, is one of the most important and classical examples of an invariant theory quotient, and is one of the first examples given in any course. Generators…

A phylogenetic variety is an algebraic variety parameterized by a statistical model of the evolution of biological sequences along a tree. Understanding this variety is an important problem in the area of algebraic statistics with…

We obtain a sharp bound on the degree of a globally generated vector bundle over a reduced irreducible projective variety defined over an algebraically closed field of characteristic zero. As an application, we obtain a Del Pezzo-Bertini…

The degree of a projective subscheme has an upper bound in term of the codimension and the reduction number. If a projective variety has an almost maximal degree, that is, the degree equals to the upper bound minus one, then its Betti table…

Several known constructions relate initial degenerations of projective toric varieties and Grassmannians to regular subdivisions of appropriate point configurations. We define a general framework which allows for partial generalizations of…

In algebraic statistics, the Kimura 3-parameter model is one of the most interesting and classical phylogenetic models. We prove that the ideals associated to this model are generated in degree four, confirming a conjecture by Sturmfels and…

Suppose that G is a linearly reductive group. We study the minimal free resolution of the invariant ring. If G is a finite linearly reductive group, then the ring of invariants is generated in degree at most |G|, the group order. We prove…

Consider a component of the Hilbert scheme whose general point corresponds to a degree d genus g smooth irreducible and nondegenerate curve in a projective variety X. We give lower bounds for the dimension of such a component when X is P^3,…

Group-based models appear in algebraic statistics as mathematical models coming from evolutionary biology, respectively the study of mutations of organisms. Both theoretically and in terms of applications, we are interested in determining…

Associated to any hypergraph is a toric ideal encoding the algebraic relations among its edges. We study these ideals and the combinatorics of their minimal generators, and derive general degree bounds for both uniform and non-uniform…

For an arithmetically Cohen--Macaulay subscheme of projective space, there is a well-known bound for the highest degree of a minimal generator for the defining ideal of the subscheme, in terms of the Hilbert function. We prove a natural…

Let $X$ be a nonempty real variety that is invariant under the action of a reflection group $G$. We conjecture that if $X$ is defined in terms of the first $k$ basic invariants of $G$ (ordered by degree), then $X$ meets a $k$-dimensional…

A theorem of O. Forster says that if $R$ is a noetherian ring of Krull dimension $d$, then any projective $R$-module of rank $n$ can be generated by $d+n$ elements. S. Chase and R. Swan subsequently showed that this bound is sharp: there…

We study phylogenetic invariants of models of evolution whose group of symmetries is the cyclic group with 3 elements. We prove that projective schemes corresponding to the ideal I of phylogenetic invariants of such a model and to its…

Let $G$ be a finite group, and let ${\rm{cd}}(G)$ denote the set of degrees of the irreducible complex characters of $G$. The degree graph $\Delta(G)$ of $G$ is defined as the simple undirected graph whose vertex set ${\rm{V}}(G)$ consists…

We address the problem of studying the toric ideals of phylogenetic invariants for a general group-based model on an arbitrary claw tree. We focus on the group $\mathbb Z_2$ and choose a natural recursive approach that extends to other…

Let G be a simple, simply connected algebraic group defined over an algebraically closed field k of positive characteristic p. Let \sigma:G->G be a strict endomorphism (i. e., the subgroup G(\sigma) of \sigma-fixed points is finite). Also,…