Algebraic Statistics for Computational Biology
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Introductory exposition (textbooks, tutorial papers, etc.) pertaining to statistics (62-01) Research exposition (monographs, survey articles) pertaining to statistics (62-02) Applications of statistics to biology and medical sciences; meta analysis (62P10) Research exposition (monographs, survey articles) pertaining to biology (92-02) Computational methods for problems pertaining to biology (92-08)
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(only showing first 100 items - show all)- Symmetric measures via moments
- Likelihood ratio tests and singularities
- The space of tropically collinear points is shellable
- On the relation between weighted trees and tropical Grassmannians
- On the ideals of equivariant tree models
- Consistency of the QNet algorithm for generating planar split networks from weighted quartets
- A tropical interpretation of \(m\)-dissimilarity maps
- Identifiability of parameters in latent structure models with many observed variables
- Discovery of statistical equivalence classes using computer algebra
- Algebraic methods for inferring biochemical networks: a maximum likelihood approach
- A very brief introduction to nonnegative tensors from the geometric viewpoint
- Algebraic and combinatorial computational biology
- Lower spectral radius and spectral mapping theorem for suprema preserving mappings
- Optimality regions and fluctuations for Bernoulli last passage models
- Neural ideals and stimulus space visualization
- Accelerating Viterbi algorithm on graphics processing units
- Binomial difference ideals
- Preface. Algebraic methods in phylogenetics
- Uniform boundedness principle for nonlinear operators on cones of functions
- Annular bounds for the zeros of a polynomial
- The maximum likelihood degree of toric varieties
- Lie Markov models
- On the geometry of chemical reaction networks: Lyapunov function and large deviations
- Tropical mixtures of star tree metrics
- Commutative algebra of statistical ranking
- Ranks of tensors and a generalization of secant varieties
- On tensors of border rank \(l\) in \({\mathbb C}^{m\times n\times l}\)
- Generating Markov evolutionary matrices for a given branch length
- Affine and projective tree metric theorems
- Binary cumulant varieties
- Persistent topology of syntax
- Detecting tropical defects of polynomial equations
- A generalization of Birch's theorem and vertex-balanced steady states for generalized mass-action systems
- Asymptotic formulae and inequalities for point spectrum in max algebra
- Hierarchical Aitchison-Silvey models for incomplete binary sample spaces
- Phylogenetics of Indo-European language families via an algebro-geometric analysis of their syntactic structures
- Irrational toric varieties and secondary polytopes
- Book review of: M. Michałek and B. Sturmfels, Invitation to nonlinear algebra
- A novel association test for rare variants based on algebraic statistics
- Curve and surface construction based on the generalized toric-Bernstein basis functions
- Computing tropical varieties over fields with valuation
- The case for algebraic biology: from research to education
- The model-specific Markov embedding problem for symmetric group-based models
- Polynomial convolutions in max-plus algebra
- Complexity of model testing for dynamical systems with toric steady states
- Fixed points of the EM algorithm and nonnegative rank boundaries
- Low degree equations for phylogenetic group-based models
- Markov chain Monte Carlo test of toric homogeneous Markov chains
- Topics on phylogenetic algebraic geometry
- Tensor surgery and tensor rank
- The mystery of two straight lines in bacterial genome statistics
- Identification of discrete concentration graph models with one hidden binary variable
- Markov degree of the three-state toric homogeneous Markov chain model
- A tropical approach to secant dimensions
- On geometry of binary symmetric models of phylogenetic trees
- Ideals and graphs, Gröbner bases and decision procedures in graphs
- Conjunctive Bayesian networks
- Ideals of varieties parameterized by certain symmetric tensors
- Table design in dynamic programming
- Multivariate Gaussians, semidefinite matrix completion, and convex algebraic geometry
- Gorenstein property for phylogenetic trivalent trees
- Tropical superelliptic curves
- Likelihood degenerations
- Embeddability of centrosymmetric matrices capturing the double-helix structure in natural and synthetic DNA
- On geometry of the zeros of a polynomial
- Exponential varieties
- Semialgebraic geometry of nonnegative tensor rank
- A scheme for molecular computation of maximum likelihood estimators for log-linear models
- The maximum likelihood degree of a very affine variety
- Natural gradient flow in the mixture geometry of a discrete exponential family
- Matrix group structure and Markov invariants in the strand symmetric phylogenetic substitution model
- The tropical commuting variety
- Algebraic boundary of matrices of nonnegative rank at most three
- Outliers and Patterns of Outliers in Contingency Tables with Algebraic Statistics
- The weighted branching process
- Finite phylogenetic complexity of \(\mathbb{Z}_p\) and invariants for \(\mathbb{Z}_3\)
- Introduction to computational algebraic statistics
- Topological language for RNA
- Introductory notes to algebraic statistics
- Likelihood geometry
- Geometry and the complexity of matrix multiplication
- An algebraic implicitization and specialization of minimum KL-divergence models
- Equations for secant varieties of Veronese and other varieties
- The Markov chain Monte Carlo revolution
- Lower bounds in real algebraic geometry and orientability of real toric varieties
- Gröbner bases of symmetric ideals
- On maximum entropy and minimum KL-divergence optimization by Gröbner basis methods
- A fast recursive orthogonalization scheme for the Macaulay matrix
- Maximal f-vectors of Minkowski sums of large numbers of polytopes
- Maximum likelihood estimation in log-linear models
- Three notions of tropical rank for symmetric matrices
- On the structure of RNA branching polytopes
- Algebraic statistics
- Existence of Positive Steady States for Weakly Reversible Mass-Action Systems
- Faithful tropicalization of the Grassmannian of planes
- An algebraic view of bacterial genome evolution
- Data identification for improving gene network inference using computational algebra
- On the volume of complex amoebas
- Graphical models for correlated defaults
- Approximate convex intersection detection with applications to width and Minkowski sums
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