相关论文: On phylogenetic trees - a geometer's view

We define phylogenetic projective toric model of a trivalent graph as a generalization of a binary symmetric model of a trivalent phylogenetic tree. Generators of the pro- jective coordinate ring of the models of graphs with one cycle are…

Phylogenetic algebraic geometry is concerned with certain complex projective algebraic varieties derived from finite trees. Real positive points on these varieties represent probabilistic models of evolution. For small trees, we recover…

The correspondence between Gorenstein Fano toric varieties and reflexive polytopes has been generalized by Ilten and S\"u{\ss} to a correspondence between Gorenstein Fano complexity-one $T$-varieties and Fano divisorial polytopes. Motivated…

We prove that any affine, resp. polarized projective, spherical variety admits a flat degeneration to an affine, resp. polarized projective, toric variety. Motivated by Mirror Symmetry, we give conditions for the limit toric variety to be a…

Cluster algebras give rise to a class of Gorenstein rings which enjoy a large amount of symmetry. Concentrating on the rank 2 cases, we show how cluster varieties can be used to construct many interesting projective algebraic varieties. Our…

We propose a refined but natural notion of toric degenerations that respect a given embedding and show that within this framework a Gorenstein Fano variety can only be degenerated to a Gorenstein Fano toric variety if it is embedded via its…

The Kimura 3-parameter model on a tree of n leaves is one of the most used in phylogenetics. The affine algebraic variety W associated to it is a toric variety. We study its geometry and we prove that it is isomorphic to a geometric…

We study Fano 3-folds with Fano index 2: that is, 3-folds X with rank Pic(X) = 1, Q-factorial terminal singularities and -K_X = 2A for an ample Weil divisor A. We give a first classification of all possible Hilbert series of such polarised…

In this paper, we prove that any two birational projective varieties with finite quotient singularities can be realized as two geometric GIT quotients of a non-singular projective variety by a reductive algebraic group. Then, by applying…

Phylogenetic trees are the fundamental mathematical representation of evolutionary processes in biology. They are also objects of interest in pure mathematics, such as algebraic geometry and combinatorics, due to their discrete geometry.…

This work concerns the problem of relating characteristic numbers of one-dimensional holomorphic foliations of P^n to those of algebraic varieties invariant by them. More precisely: if M is a connected complex manifold, a one-dimensional…

We show that mixed-characteristic and equi-characteristic small deformations of 3-dimensional canonical (resp. terminal) singularities with perfect residue field of characteristic $p>5$ are canonical (resp. terminal). We discuss…

Let $X$ be a cubic fourfold that has only simple singularities and does not contain a plane. We prove that the Fano variety of lines on $X$ has the same analytic type of singularity as the Hilbert scheme of two points on a surface with only…

For fixed degree $d\leq 12$, we study the Hilbert scheme of degree $d$ smooth Fano threefolds in their anticanonical embeddings. We use this to classify all possible degenerations of these varieties to toric Fano varieties with at most…

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…

Many classes of projective algebraic varieties can be studied in terms of graded rings. Gorenstein graded rings in small codimension have been studied recently from an algebraic point of view, but the geometric meaning of the resulting…

There exist exactly 166 4-dimensional reflexive polytopes such that the corresponding 4-dimensional Gorenstein toric Fano varieties have at worst terminal singularities in codimension 3 and their anticanonical divisor is divisible by 2. For…

We construct an explicit semistable degeneration of a Fano eightfold of index three and deduce its Hodge numbers, in particular we show that it has Picard rank one. The Fano variety is of K3 type and it is defined as a connected component…

We prove that the sum of the Picard ranks of a polar pair of Gorenstein toric Fano varieties of dimension $d\geq 3$ is at most the minimum of the number of facets and vertices of the corresponding pair of reflexive polytopes minus $(d-1)$.…

This is an expository paper. The geometry of phylogenetic trees is used to present in an accessible and pleasant fashion the results of Deligne, Mumford, and Knudsen about the moduli space of n distinct points on the projective line and its…