The Strand Symmetric Model

DOI10.1017/CBO9780511610684.020MaRDI QIDQ4594314zbMATH OpenOpenAlexWikidataFDO

Authors Seth Sullivant, Marta Casanellas

Publication date 23 November 2017

Published in Algebraic Statistics for Computational Biology (Search for Journal in Brave)

Full work available at URL https://doi.org/10.1017/cbo9780511610684.020

Mathematics Subject Classification ID

Markov chains (discrete-time Markov processes on discrete state spaces) (60J10) Applications of Markov chains and discrete-time Markov processes on general state spaces (social mobility, learning theory, industrial processes, etc.) (60J20) Protein sequences, DNA sequences (92D20)

Cited in

(19)

• On the ideals of equivariant tree models
• Lie-Markov models derived from finite semigroups
• Generating Markov evolutionary matrices for a given branch length
• Lie Markov models with purine/pyrimidine symmetry
• Finiteness results for abelian tree models
• Local equations for equivariant evolutionary models
• Topics on phylogenetic algebraic geometry
• Full reconstruction of non-stationary strand-symmetric models on rooted phylogenies
• Bounded-rank tensors are defined in bounded degree
• Embeddability of centrosymmetric matrices capturing the double-helix structure in natural and synthetic DNA
• Matrix group structure and Markov invariants in the strand symmetric phylogenetic substitution model
• Quantum channel simulation of phylogenetic branching models
• Systematics and symmetry in molecular phylogenetic modelling: perspectives from physics
• An open set of 4×4 embeddable matrices whose principal logarithm is not a Markov generator
• Generating embeddable matrices whose principal logarithm is not a Markov generator
• Phylogenetic reconstruction based on algebra
• Phylogenetic invariants: from the general Markov to equivariant models
• Relevant phylogenetic invariants of evolutionary models
• Geometry of the Kimura 3-parameter model

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