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Graphs are ubiquitous data structures for representing interactions between entities. With an emphasis on the use of graphs to represent chemical molecules, we explore the task of learning to generate graphs that conform to a distribution…

Machine Learning · Computer Science 2019-03-08 Qi Liu , Miltiadis Allamanis , Marc Brockschmidt , Alexander L. Gaunt

We address the problem of computing the distribution of induced connected subgraphs, aka \emph{graphlets} or \emph{motifs}, in large graphs. The current state-of-the-art algorithms estimate the motif counts via uniform sampling, by…

Data Structures and Algorithms · Computer Science 2021-07-20 Marco Bressan , Stefano Leucci , Alessandro Panconesi

We introduce in a general setting a dynamic programming method for solving reconfiguration problems. Our method is based on contracted solution graphs, which are obtained from solution graphs by performing an appropriate series of edge…

Data Structures and Algorithms · Computer Science 2018-07-13 Paul Bonsma , Daniel Paulusma

Let $G=(V,E)$ be a vertex-colored graph, where $C$ is the set of colors used to color $V$. The Graph Motif (or GM) problem takes as input $G$, a multiset $M$ of colors built from $C$, and asks whether there is a subset $S\subseteq V$ such…

Computational Complexity · Computer Science 2019-08-13 Guillaume Fertin , Christian Komusiewicz

Graph problems are fundamentally challenging for large language models (LLMs). While LLMs excel at processing unstructured text, graph tasks require reasoning over explicit structure, permutation invariance, and computationally complex…

Machine Learning · Computer Science 2026-04-23 Angelo Zangari , Peyman Baghershahi , Sourav Medya

Graph encoder embedding, a recent technique for graph data, offers speed and scalability in producing vertex-level representations from binary graphs. In this paper, we extend the applicability of this method to a general graph model, which…

Machine Learning · Statistics 2024-10-24 Cencheng Shen

Subexponential parameterized algorithms are known for a wide range of natural problems on planar graphs, but the techniques are usually highly problem specific. The goal of this paper is to introduce a framework for obtaining…

Data Structures and Algorithms · Computer Science 2021-10-29 Dániel Marx , Pranabendu Misra , Daniel Neuen , Prafullkumar Tale

A graph is c-closed if every pair of vertices with at least c common neighbors is adjacent. The c-closure of a graph G is the smallest number such that G is c-closed. Fox et al. [ICALP '18] defined c-closure and investigated it in the…

Discrete Mathematics · Computer Science 2022-06-22 Tomohiro Koana , Christian Komusiewicz , Frank Sommer

We study graph partitioning problems from a min-max perspective, in which an input graph on n vertices should be partitioned into k parts, and the objective is to minimize the maximum number of edges leaving a single part. The two main…

Data Structures and Algorithms · Computer Science 2011-10-21 Nikhil Bansal , Uriel Feige , Robert Krauthgamer , Konstantin Makarychev , Viswanath Nagarajan , Joseph , Naor , Roy Schwartz

A graph $G = (V,E)$ can be described by the characteristic function of the edge set $\chi_E$ which maps a pair of binary encoded nodes to 1 iff the nodes are adjacent. Using \emph{Ordered Binary Decision Diagrams} (OBDDs) to store $\chi_E$…

Data Structures and Algorithms · Computer Science 2013-05-14 Marc Gillé

We study the problems of counting copies and induced copies of a small pattern graph $H$ in a large host graph $G$. Recent work fully classified the complexity of those problems according to structural restrictions on the patterns $H$. In…

Computational Complexity · Computer Science 2024-04-15 Marco Bressan , Leslie Ann Goldberg , Kitty Meeks , Marc Roth

Visual rendering of graphs is a key task in the mapping of complex network data. Although most graph drawing algorithms emphasize aesthetic appeal, certain applications such as travel-time maps place more importance on visualization of…

Machine Learning · Statistics 2014-01-20 Brian Baingana , Georgios B. Giannakis

Golovach, Paulusma and Song (Inf. Comput. 2014) asked to determine the parameterized complexity of the following problems parameterized by $k$: (1) Given a graph $G$, a clique modulator $D$ (a clique modulator is a set of vertices, whose…

Data Structures and Algorithms · Computer Science 2019-07-30 Gregory Gutin , Diptapriyo Majumdar , Sebastian Ordyniak , Magnus Wahlström

Graph partitioning is a key fundamental problem in the area of big graph computation. Previous works do not consider the practical requirements when optimizing the big data analysis in real applications. In this paper, motivated by…

Databases · Computer Science 2024-04-10 Baoling Ning , Jianzhong Li

Given a graph $G = (V, E)$ and an integer $k$, the Minimum Membership Dominating Set problem asks to compute a set $S \subseteq V$ such that for each $v \in V$, $1 \leq |N[v] \cap S| \leq k$. The problem is known to be NP-complete even on…

Data Structures and Algorithms · Computer Science 2024-08-05 Sangam Balchandar Reddy , Anjeneya Swami Kare

Since Jacobson [FOCS89] initiated the investigation of succinct graph encodings 35 years ago, there has been a long list of results on balancing the generality of the class, the speed, the succinctness of the encoding, and the query…

Data Structures and Algorithms · Computer Science 2023-07-06 Hsueh-I Lu

We consider the problem of detecting a cycle in a directed graph that grows by arc insertions, and the related problems of maintaining a topological order and the strong components of such a graph. For these problems, we give two…

Data Structures and Algorithms · Computer Science 2011-12-06 Michael A. Bender , Jeremy T. Fineman , Seth Gilbert , Robert E. Tarjan

We investigate the maximum size of graph families on a common vertex set of cardinality $n$ such that the symmetric difference of the edge sets of any two members of the family satisfies some prescribed condition. We solve the problem…

Combinatorics · Mathematics 2022-04-05 Noga Alon , Anna Gujgiczer , János Körner , Aleksa Milojević , Gábor Simonyi

Graph coloring is fundamental to distributed computing. We give the first general treatment of the coloring of virtual graphs, where the graph $H$ to be colored is locally embedded within the communication graph $G$. Besides generalizing…

Distributed, Parallel, and Cluster Computing · Computer Science 2024-08-21 Maxime Flin , Magnús M. Halldórsson , Alexandre Nolin

We revisit asynchronous computing in networks of crash-prone processes, under the asynchronous variant of the standard LOCAL model, recently introduced by Fraigniaud et al. [DISC 2022]. We focus on the vertex coloring problem, and our…

Distributed, Parallel, and Cluster Computing · Computer Science 2024-08-21 Alkida Balliu , Pierre Fraigniaud , Patrick Lambein-Monette , Dennis Olivetti , Mikael Rabie