Related papers: Towards a Decomposition-Optimal Algorithm for Coun…
Maintaining a $k$-core decomposition quickly in a dynamic graph has important applications in network analysis. The main challenge for designing efficient exact algorithms is that a single update to the graph can cause significant global…
Counting the number of occurrences of small connected subgraphs, called temporal motifs, has become a fundamental primitive for the analysis of temporal networks, whose edges are annotated with the time of the event they represent. One of…
This article presents a new search algorithm for the NP-hard problem of optimizing functions of binary variables that decompose according to a graphical model. It can be applied to models of any order and structure. The main novelty is a…
We are motivated by a tantalizing open question in exact algorithms: can we detect whether an $n$-vertex directed graph $G$ has a Hamiltonian cycle in time significantly less than $2^n$? We present new randomized algorithms that improve…
We introduce a new method for finding network motifs: interesting or informative subgraph patterns in a network. Subgraphs are motifs when their frequency in the data is high compared to the expected frequency under a null model. To compute…
Uniform sampling of simple graphs having a given degree sequence is a known problem with exponential complexity in the square of the mean degree. For undirected graphs, randomised approximation algorithms have nonetheless been shown to…
Subgraph and homomorphism counting are fundamental algorithmic problems. Given a constant-sized pattern graph $H$ and a large input graph $G$, we wish to count the number of $H$-homomorphisms/subgraphs in $G$. Given the massive sizes of…
We describe a general purpose algorithm for counting simple cycles and simple paths of any length $\ell$ on a (weighted di)graph on $N$ vertices and $M$ edges, achieving a time complexity of $O\left(N+M+\big(\ell^\omega+\ell\Delta\big)…
A new heuristic based on vertex invariants is developed to rapidly distinguish non-isomorphic graphs to a desired level of accuracy. The method is applied to sample subgraphs from an E.coli protein interaction network, and as a probe for…
The (non-uniform) sparsest cut problem is the following graph-partitioning problem: given a "supply" graph, and demands on pairs of vertices, delete some subset of supply edges to minimize the ratio of the supply edges cut to the total…
Efficiently finding similar segments or motifs in time series data is a fundamental task that, due to the ubiquity of these data, is present in a wide range of domains and situations. Because of this, countless solutions have been devised…
Graph Crossing Number is a fundamental problem with various applications. In this problem, the goal is to draw an input graph $G$ in the plane so as to minimize the number of crossings between the images of its edges. Despite extensive…
We study the problem of selecting most informative subset of a large observation set to enable accurate estimation of unknown parameters. This problem arises in a variety of settings in machine learning and signal processing including…
It is known that greedy methods perform well for maximizing monotone submodular functions. At the same time, such methods perform poorly in the face of non-monotonicity. In this paper, we show - arguably, surprisingly - that invoking the…
Genome assembly is a fundamental problem in Bioinformatics, where for a given set of overlapping substrings of a genome, the aim is to reconstruct the source genome. The classical approaches to solving this problem use assembly graphs, such…
We study the classic problem of subgraph counting, where we wish to determine the number of occurrences of a fixed pattern graph $H$ in an input graph $G$ of $n$ vertices. Our focus is on bounded degeneracy inputs, a rich family of graph…
This paper proposes a novel method of algorithmic subsampling (data sketching) for multiway cluster dependent data. We establish a new uniform weak law of large numbers and a new central limit theorem for the multiway algorithmic subsample…
We use exponential start time clustering to design faster and more work-efficient parallel graph algorithms involving distances. Previous algorithms usually rely on graph decomposition routines with strict restrictions on the diameters of…
Given a directed graph $G$ and integers $k$ and $l$, a D-core is the maximal subgraph $H \subseteq G$ such that for every vertex of $H$, its in-degree and out-degree are no smaller than $k$ and $l$, respectively. For a directed graph $G$,…
Designing molecular structures with desired chemical properties is an essential task in drug discovery and material design. However, finding molecules with the optimized desired properties is still a challenging task due to combinatorial…