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The observation by Ke et al. [Science 338, 1177 (2012)] that large numbers of short, pre-designed DNA strands can assemble into three-dimensional target structures came as a great surprise, as no colloidal self-assembling system has ever…
This paper presents several algorithms for hashing directed graphs. The algorithms given are capable of hashing entire graphs as well as assigning hash values to specific nodes in a given graph. The notion of node symmetry is made precise…
In a strongly connected graph $G = (V,E)$, a cut arc (also called strong bridge) is an arc $e \in E$ whose removal makes the graph no longer strongly connected. Equivalently, there exist $u,v \in V$, such that all $u$-$v$ walks contain $e$.…
For any constants $d\ge 1$, $\epsilon >0$, $t>1$, and any $n$-point set $P\subset\mathbb{R}^d$, we show that there is a geometric graph $G=(P,E)$ having $O(n\log^2 n\log\log n)$ edges with the following property: For any $F\subseteq P$,…
Let $G$ be a directed graph with $n$ vertices and $m$ edges, embedded on a surface $S$, possibly with boundary, with first Betti number $\beta$. We consider the complexity of finding closed directed walks in $G$ that are either contractible…
The notion of forbidden-transition graphs allows for a robust generalization of walks in graphs. In a forbidden-transition graph, every pair of edges incident to a common vertex is permitted or forbidden; a walk is compatible if all pairs…
Deciding whether a graph can be embedded in a grid using only unit-length edges is NP-complete, even when restricted to binary trees. However, it is not difficult to devise a number of graph classes for which the problem is polynomial, even…
Self-assembly is traditionally described as the process through which an initially disordered system relaxes towards an equilibrium ordered phase only driven by local interactions between its building blocks. However, This definition is too…
The definition of $1$-planar graphs naturally extends graph planarity, namely a graph is $1$-planar if it can be drawn in the plane with at most one crossing per edge. Unfortunately, while testing graph planarity is solvable in linear time,…
Electronically-active organic molecules have demonstrated great promise as novel soft materials for energy harvesting and transport. Self-assembled nanoaggregates formed from $\pi$-conjugated oligopeptides composed of an aromatic core…
The possibility to control the commensurability and distance between graphene layers separated by a dielectric spacer is considered by the example of a heterostructure consisting of double-layer graphene separated by atomic layers of argon.…
Given an undirected graph $G$ and a multiset of $k$ terminal pairs $\mathcal{X}$, the Vertex-Disjoint Paths (\VDP) and Edge-Disjoint Paths (\EDP) problems ask whether $G$ has $k$ pairwise internally vertex-disjoint paths and $k$ pairwise…
Higher order random walks (HD-walks) on high dimensional expanders (HDX) have seen an incredible amount of study and application since their introduction by Kaufman and Mass [KM16], yet their broader combinatorial and spectral properties…
We study noncrossing geometric graphs and their disjoint compatible geometric matchings. Given a cycle (a polygon) P we want to draw a set of pairwise disjoint straight-line edges with endpoints on the vertices of P such that these new…
This paper revisits the classical Edge Disjoint Paths (EDP) problem, where one is given an undirected graph $G$ and a set of terminal pairs $P$ and asks whether $G$ contains a set of pairwise edge-disjoint paths connecting every terminal…
We investigate theoretically the translocation of structured RNA/DNA molecules through narrow pores which allow single but not double strands to pass. The unzipping of basepaired regions within the molecules presents significant kinetic…
In the framework of algebraic topology the closed sequence of 4-dimensional polyhedra (algebraic polytopes) was defined. This sequence is started by the polytope {240}, discovered by Coxeter, and is determined by the second coordination…
Ordered nanoarrays, i.e. regular patterns of quantum structures at the nanometre scale, have recently been synthesized in a wide range of systems. Here I explore a possible route to technological exploitation: assuming a simple form of…
A self-repelling random walk of a token on a graph is one in which at each step, the token moves to a neighbor that has been visited least often (with ties broken randomly). The properties of self-repelling random walks have been analyzed…
Nanopores in two-dimensional (2D) materials, including graphene, can be used for a variety of applications, such as gas separations, water desalination, and DNA sequencing. So far, however, all plausible isomeric shapes of graphene…