Related papers: Minimal knotted polygons in cubic lattices
In this paper the elementary moves of the BFACF-algorithm for lattice polygons are generalised to elementary moves of BFACF-style algorithms for lattice polygons in the body-centred (BCC) and face-centred (FCC) cubic lattices. We prove that…
In this paper the number and lengths of minimal length lattice knots confined to slabs of width $L$, is determined. Our data on minimal length verify the results by Sharein et.al. (2011) for the similar problem, expect in a single case,…
The (isothermic) compressibility of lattice knots can be examined as a model of the effects of topology and geometry on the compressibility of ring polymers. In this paper, the compressibility of minimal length lattice knots in the simple…
We introduce a two-dimensional lattice model for the description of knotted polymer rings. A polymer configuration is modeled by a closed polygon drawn on the square diagonal lattice, with possible crossings describing pairs of strands of…
Inspired by how certain proteins "sense" knots and entanglements in DNA molecules, here we ask if there exist local geometric features that may be used as a read-out of the underlying topology of generic polymers. We perform molecular…
In this paper we examine the relative knotting probabilities in a lattice model of ring polymers confined in a cavity. The model is of a lattice knot of size $n$ in the cubic lattice, confined to a cube of side-length $L$ and with volume…
We discuss the possibility of the existence of finite algorithms that may give distinct knot classes. In particular we present two attempts for such algorithms which seem promising, one based on knot projections on a plane, the other on…
Lattice rules and polynomial lattice rules are quadrature rules for approximating integrals over the $s$-dimensional unit cube. Since no explicit constructions of such quadrature methods are known for dimensions $s > 2$, one usually has to…
We estimate by Monte Carlo simulations the configurational entropy of $N$-steps polygons in the cubic lattice with fixed knot type. By collecting a rich statistics of configurations with very large values of $N$ we are able to analyse the…
We analyze the factorization process for lattice maps, searching for integrable cases. The maps were assumed to be at most quadratic in the dependent variables, and we required minimal factorization (one linear factor) after 2 steps of…
Realistic 3D-conformations of protein structures can be embedded in a cubic lattice using exclusively integer numbers, additions, subtractions and boolean operations.
We present a lattice algorithm specifically designed for some classical applications of lattice reduction. The applications are for lattice bases with a generalized knapsack-type structure, where the target vectors are boundably short. For…
Algorithms for minimal enclosing ball problems are often geometric in nature. To highlight the metric ingredients underlying their efficiency, we focus here on a particularly simple geodesic-based method. A recent subgradient-based study…
The entropic pressure in the vicinity of a cubic lattice knot is examined as a model of the entropic pressure near a knotted ring polymer in a good solvent. A model for the scaling of the pressure is developed and this is tested numerically…
We classify the unimodular equivalence classes of inclusion-minimal polygons with a certain fixed lattice width. As a corollary, we find a sharp upper bound on the number of lattice points of these minimal polygons.
An embedded cubic graph consisting of segments of geodesics such that the angles at any vertex are equal to $2\pi/3$ is a closed local minimal net. This net is regular if all segments of geodesics are equal. The problem of classification of…
This paper designs an alogrithm to compute the minimal combinations of finite sets in Euclidean spaces, and applys the algorithm of study the moment maps and geometric invariant stability of hypersurfaces. The classical example of cubic…
We give an algorithm that constructs the Hasse diagram of the face lattice of a convex polytope P from its vertex-facet incidences in time O(min{n,m}*a*f), where n is the number of vertices, m is the number of facets, a is the number of…
Steric clashes pose a challenge when exploring dense protein systems using conventional explicit-chain methods. A minimal example is a single lattice protein confined on a minimal grid, with no free sites. Finding its minimum energy is a…
We present algorithms for classifying rational polygons with fixed denominator and number of interior lattice points. Our approach is to first describe maximal polygons and then compute all subpolygons, where we eliminate redundancy by a…