Related papers: A memory-efficient data structure representing exa…
We show how to construct an overlay network of constant degree and diameter $O(\log n)$ in time $O(\log n)$ starting from an arbitrary weakly connected graph. We assume a synchronous communication network in which nodes can send messages to…
A graph $G$ is said to be a $(k,\ell)$-graph if its vertex set can be partitioned into $k$ independent sets and $\ell$ cliques. It is well established that the recognition problem for $(k,\ell)$-graphs is NP-complete whenever $k \geq 3$ or…
Let G be an edge-weighted hypergraph on n vertices, m edges of size \le s, where the edges have real weights in an interval [1,W]. We show that if we can approximate a maximum weight matching in G within factor alpha in time T(n,m,W) then…
A fundamental question that shrouds the emergence of massively parallel computing (MPC) platforms is how can the additional power of the MPC paradigm be leveraged to achieve faster algorithms compared to classical parallel models such as…
We show a fully dynamic algorithm for maintaining $(1+\epsilon)$-approximate \emph{size} of maximum matching of the graph with $n$ vertices and $m$ edges using $m^{0.5-\Omega_{\epsilon}(1)}$ update time. This is the first polynomial…
In this paper, we study error-correcting codes for the storage of data in synthetic deoxyribonucleic acid (DNA). We investigate a storage model where data is represented by an unordered set of $M$ sequences, each of length $L$. Errors…
We consider the problem of encoding a string of length $n$ from an integer alphabet of size $\sigma$ so that access and substring equality queries (that is, determining the equality of any two substrings) can be answered efficiently. Any…
Recent emergence of next-generation DNA sequencing technology has enabled acquisition of genetic information at unprecedented scales. In order to determine the genetic blueprint of an organism, sequencing platforms typically employ…
Motivated by the exact weight perfect matching problem and recent parameterized algorithms for finding an $\ell$-th smallest perfect matching, we study structural properties of edge-weight symmetries in graphs. Recent work by El Maalouly et…
We present an algorithm for computing a maximum agreement subtree of two unrooted evolutionary trees. It takes O(n^{1.5} log n) time for trees with unbounded degrees, matching the best known time complexity for the rooted case. Our…
The distinguishing result of this paper is a $\mathbf{P}$-time enumerable partition of all the potential perfect matchings in a bipartite graph. This partition is a set of equivalence classes induced by the missing edges in the potential…
We consider a range-search variant of the closest-pair problem. Let $\varGamma$ be a fixed shape in the plane. We are interested in storing a given set of $n$ points in the plane in some data structure such that for any specified translate…
Unbalanced translocations are among the most frequent chromosomal alterations, accounted for 30\% of all losses of heterozygosity, a major genetic event causing inactivation of tumor suppressor genes. Despite of their central role in…
Given a graph $G=(V,E)$ and for each vertex $v \in V$ a subset $B(v)$ of the set $\{0,1,\ldots, d_G(v)\}$ a $B$-matching of $G$ is any set $F \subseteq E$ such that $d_F(v) \in B(v)$ for each vertex $v$. The general matching problem asks…
The compact directed acyclic word graph (CDAWG) of a string $T$ of length $n$ takes space proportional just to the number $e$ of right extensions of the maximal repeats of $T$, and it is thus an appealing index for highly repetitive…
Subgraph matching is a fundamental building block for graph-based applications and is challenging due to its high-order combinatorial nature. Existing studies usually tackle it by combinatorial optimization or learning-based methods.…
We consider the problem of designing a succinct data structure for {\it path graphs} (which are a proper subclass of chordal graphs and a proper superclass of interval graphs) on $n$ vertices while supporting degree, adjacency, and…
An {\em ancestry labeling scheme} labels the nodes of any tree in such a way that ancestry queries between any two nodes in a tree can be answered just by looking at their corresponding labels. The common measure to evaluate the quality of…
We consider string matching with variable length gaps. Given a string $T$ and a pattern $P$ consisting of strings separated by variable length gaps (arbitrary strings of length in a specified range), the problem is to find all ending…
A complete graph is the graph in which every two vertices are adjacent. For a graph $G=(V,E)$, the complete width of $G$ is the minimum $k$ such that there exist $k$ independent sets $\mathtt{N}_i\subseteq V$, $1\le i\le k$, such that the…