Related papers: A general method for common intervals
Graphs are extremely versatile and ubiquitous mathematical structures with potential to model a wide range of domains. For this reason, graph problems have been of interest since the early days of computer science. Some of these problems…
There is a deep connection between permutations and trees. Certain sub-structures of permutations, called sub-permutations, bijectively map to sub-trees of binary increasing trees. This opens a powerful tool set to study enumerative and…
We propose graph kernels based on subgraph matchings, i.e. structure-preserving bijections between subgraphs. While recently proposed kernels based on common subgraphs (Wale et al., 2008; Shervashidze et al., 2009) in general can not be…
A graph $G=(V,E)$ is a geometric intersection graph if every node $v \in V$ is identified with a geometric object of some particular type, and two nodes are adjacent if the corresponding objects intersect. Geometric intersection graph…
A cocomparability graph is a graph whose complement admits a transitive orientation. An interval graph is the intersection graph of a family of intervals on the real line. In this paper we investigate the relationships between interval and…
Given a property (graph class) $\Pi$, a graph $G$, and an integer $k$, the \emph{$\Pi$-completion} problem consists in deciding whether we can turn $G$ into a graph with the property $\Pi$ by adding at most $k$ edges to $G$. The…
Reconstruction of evolutionary relationships between species is an important topic in the field of computational biology. Pairwise compatibility graphs (PCGs) are used to model such relationships. A graph is a PCG if its edges can be…
This paper deals with the problem of graph matching or network alignment for Erd\H{o}s--R\'enyi graphs, which can be viewed as a noisy average-case version of the graph isomorphism problem. Let $G$ and $G'$ be $G(n, p)$ Erd\H{o}s--R\'enyi…
We consider the well-studied pattern counting problem: given a permutation $\pi \in \mathbb{S}_n$ and an integer $k > 1$, count the number of order-isomorphic occurrences of every pattern $\tau \in \mathbb{S}_k$ in $\pi$. Our first result…
In this work, we introduce the \emph{interval permutation segment (IP-SEG)} model that naturally generalizes the geometric intersection models of interval and permutation graphs. We study properties of two graph classes that arise from the…
Paths $P_1,\ldots, P_k$ in a graph $G=(V,E)$ are mutually induced if any two distinct $P_i$ and $P_j$ have neither common vertices nor adjacent vertices. The Induced Disjoint Paths problem is to decide if a graph $G$ with $k$ pairs of…
Understanding the structure and dynamics of biological networks is one of the important challenges in system biology. In addition, increasing amount of experimental data in biological networks necessitate the use of efficient methods to…
We investigate the parameterized complexity of the recognition problem for the proper $H$-graphs. The $H$-graphs are the intersection graphs of connected subgraphs of a subdivision of a multigraph $H$, and the properness means that the…
Symbolic regression via genetic programming is a flexible approach to machine learning that does not require up-front specification of model structure. However, traditional approaches to symbolic regression require the use of protected…
Computing the Euler genus of a graph is a fundamental problem in graph theory and topology. It has been shown to be NP-hard by [Thomassen '89] and a linear-time fixed-parameter algorithm has been obtained by [Mohar '99]. Despite extensive…
In this paper, we address the problem of enumerating all induced subtrees in an input k-degenerate graph, where an induced subtree is an acyclic and connected induced subgraph. A graph G = (V, E) is a k-degenerate graph if for any its…
We give an extension of the $G$ method, with results, the extension and results being partly suggested by the finite Markov chains and specially by the finite-time consensus problem for the DeGroot model and that for the DeGroot model on…
The topic is the average order $A(G)$ of a connected induced subgraph of a graph $G$. This generalizes, to graphs in general, the average order of a subtree of a tree. In 1984, Jamison proved that the average order, over all trees of order…
Let $G$ and $H$ be two simple graphs. A bijection $\phi:V(G)\rightarrow V(H)$ is called an isomorphism between $G$ and $H$ if $(\phi v_i)(\phi v_j)\in E(H)$ $\Leftrightarrow$ $v_i v_j\in E(G)$, $\forall v_i,v_j \in V(G)$. In the case that…
The mean subtree order of a given graph $G$, denoted $\mu(G)$, is the average number of vertices in a subtree of $G$. Let $G$ be a connected graph. Chin, Gordon, MacPhee, and Vincent [J. Graph Theory, 89(4): 413-438, 2018] conjectured that…