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Kai Ishihara

Publications and source records attributed to Kai Ishihara.

9 recordsLinked to original sources
arXiv2025

Entanglement statistics of polymers in a lattice tube and unknotting of 4-plats

The Knot Entropy Conjecture states that the exponential growth rate of the number of $n$-edge lattice polygons with knot-type $K$ is the same as that for unknot polygons. Moreover, the next order growth follows a power law in $n$ with an exponent that increases by one for each prime knot in the knot decomposition of $K$. We provide the first proof of this conjecture by considering knots and non-split links in tube $\mathbb{T}^*$, an $\infty \times 2\times 1$ sublattice of the simple cubic lattice. We establish upper and lower bounds relating the asymptotics of the number of $n$-edge polygons with fixed link-type in $\mathbb{T}^*$ to that of the number of $n$-edge unknots. For the upper bound, we prove that polygons can be unknotted by braid insertions. For the lower bound, we prove a pattern theorem for unknots using information from exact transfer-matrices. This work provides new knot theory results for 4-plats and new combinatorics results for lattice polygons. Connections to modelling polymers such as DNA in nanochannels are highlighted.

math.GT↗
arXiv2024

Signature and crossing number of links

This paper investigates the relationship between the signature and the crossing number of knots and links. We refine existing theorems and provide a comprehensive classification of links with specific properties, particularly those with signatures that deviate by a fixed amount from their crossing numbers. The main results include the identification of all links for which the sum of the signature and crossing number equals 2, which are shown to be closures of positive 3-braids. Additionally, we explore the implications of these findings in the context of band surgeries and their applications to vortex knots and DNA topology.

math.GT↗
arXiv2022

Handlebody decompositions of 3-manifolds and polycontinuous patterns

We introduce the concept of a handlebody decomposition of a 3-manifold, a generalization of a Heegaard splitting, or a trisection. We show that two handlebody decompositions of a closed orientable 3-manifold are stably equivalent. As an application to materials science, we consider a mathematical model of polycontinuous patterns and discuss a topological study of microphase separation of a block copolymer melt.

math.GT↗
arXiv2020

Complete classification of generalized crossing changes between GOF-knots

We analyze all monodromies of genus one fibered knots that possess clean or once-unclean arcs, and use this to determine all manifolds containing genus one fibered knots with generalized crossing changes resulting in another genus one fibered knot, and classify all such generalized crossing changes between two genus one, fibered knots.

math.GT↗
arXiv2018

Characterising knotting properties of polymers in nanochannels

Using a lattice model of polymers in a tube, we define one way to characterise different configurations of a given knot as either "local" or "non-local" and, for several ring polymer models, we provide both theoretical and numerical evidence that, at equilibrium, the non-local configurations are more likely than the local ones. These characterisations are based on a standard approach for measuring the "size" of a knot within a knotted polymer chain. The method involves associating knot-types to subarcs of the chain, and then identifying a knotted subarc with minimal arclength; this arclength is then the knot-size. If the resulting knot-size is small relative to the whole length of the chain, then the knot is considered to be localised or "local". If on the other hand the knot-size is comparable to the length of the chain, then the knot is considered to be "non-local". Using this definition, we establish that all but exponentially few sufficiently long self-avoiding polygons (closed chains) in a tubular sublattice of the simple cubic lattice are "non-locally" knotted. This is shown to also hold for the case when the same polygons are subject to an external tensile force, as well as in the extreme case when they are as compact as possible (no empty lattice sites). We also provide numerical evidence for small tube sizes that at equilibrium non-local knotting is more likely than local knotting, regardless of the strength of the stretching or compressing force. We note however that because of the tube confinement, the occurrence of non-local knotting in walks (open chains) is significantly different than for polygons. The relevance of these results to recent experiments involving DNA knots in solid-state nanopores is also discussed.

math.CO↗
arXiv2014

Coherent band pathways between knots and links

We categorise coherent band (aka nullification) pathways between knots and 2-component links. Additionally, we characterise the minimal coherent band pathways (with intermediates) between any two knots or 2-component links with small crossing number. We demonstrate these band surgeries for knots and links with small crossing number. We apply these results to place lower bounds on the minimum number of recombinant events separating DNA configurations, restrict the recombination pathways and determine chirality and/or orientation of the resulting recombinant DNA molecules.

math.GT↗
arXiv2014

Band surgeries and crossing changes between fibered links

We characterize cutting arcs on fiber surfaces that produce new fiber surfaces, and the changes in monodromy resulting from such cuts. As a corollary, we characterize band surgeries between fibered links and introduce an operation called Generalized Hopf banding. We further characterize generalized crossing changes between fibered links, and the resulting changes in monodromy.

math.GT↗
arXiv2011

Rational tangle surgery and Xer recombination on catenanes

The protein recombinase can change the knot type of circular DNA. The action of a recombinase converting one knot into another knot is normally mathematically modeled by band surgery. Band surgeries on a 2-bridge knot N((4mn-1)/(2m)) yielding a (2,2k)-torus link are characterized. We apply this and other rational tangle surgery results to analyze Xer recombination on DNA catenanes using the tangle model for protein-bound DNA.

math.GT↗