Related papers: The trace reconstruction problem for spider graphs
Let $\mathcal{Q}$ be a vertex subset problem on graphs. In a reconfiguration variant of $\mathcal{Q}$ we are given a graph $G$ and two feasible solutions $S_s, S_t\subseteq V(G)$ of $\mathcal{Q}$ with $|S_s|=|S_t|=k$. The problem is to…
Suppose a graph $G$ is stochastically created by uniformly sampling vertices along a line segment and connecting each pair of vertices with a probability that is a known decreasing function of their distance. We ask if it is possible to…
How efficiently can we find an unknown graph using distance queries between its vertices? We assume that the unknown graph is connected, unweighted, and has bounded degree. The goal is to find every edge in the graph. This problem admits a…
Motivated by average-case trace reconstruction and coding for portable DNA-based storage systems, we initiate the study of \emph{coded trace reconstruction}, the design and analysis of high-rate efficiently encodable codes that can be…
Trace reconstruction considers the task of recovering an unknown string $x \in \{0,1\}^n$ given a number of independent "traces", i.e., subsequences of $x$ obtained by randomly and independently deleting every symbol of $x$ with some…
We study the problem of reconstructing a hidden graph given access to a distance oracle. We design randomized algorithms for the following problems: reconstruction of a degree bounded graph with query complexity $\tilde{O}(n^{3/2})$;…
We consider a network where an infection cascade has taken place and a subset of infected nodes has been partially observed. Our goal is to reconstruct the underlying cascade that is likely to have generated these observations. We reduce…
In this work, we study the Biclique-Free Vertex Deletion problem: Given a graph $G$ and integers $k$ and $i \le j$, find a set of at most $k$ vertices that intersects every (not necessarily induced) biclique $K_{i, j}$ in $G$. This is a…
We show that any $n$-bit string can be recovered with high probability from $\exp(\widetilde{O}(n^{1/5}))$ independent random subsequences.
It is known that the stationary distribution of the random walk process is dependent on the structure of the network. This could provide us a solution of the network reconstruction. However, the stationary distribution of the random walk…
We address the discrete inverse conductance problem for well-connected spider networks; that is, to recover the conductance function on a well-connected spider network from the Dirichlet-to-Neumann map. It is well-known that this inverse…
In a random linear graph, vertices are points on a line, and pairs of vertices are connected, independently, with a link probability that decreases with distance. We study the problem of reconstructing the linear embedding from the graph,…
An important problem of reconstruction of diffusion network and transmission probabilities from the data has attracted a considerable attention in the past several years. A number of recent papers introduced efficient algorithms for the…
Spiders are arthropods that can be distinguished from their closest relatives, the insects, by counting their legs. Spiders have 8, insects just 6. Spider graphs are a very restricted class of graphs that naturally appear in the context of…
Let $G$ be a $3$-connected ordered graph with $n$ vertices and $m$ edges. Let $\mathbf{p}$ be a randomly chosen mapping of these $n$ vertices to the integer range $\{1, 2,3, \ldots, 2^b\}$ for $b\ge m^2$. Let $\ell$ be the vector of $m$…
The reduction of the fragment assembly problem to (variations of) the classical Eulerian trail problem [Pevzner et al., PNAS 2001] has led to remarkable progress in genome assembly. This reduction employs the notion of de Bruijn graph…
We consider the phylogenetic tree reconstruction problem with insertions and deletions (indels). Phylogenetic algorithms proceed under a model where sequences evolve down the model tree, and given sequences at the leaves, the problem is to…
Mean-based reconstruction is a fundamental, natural approach to worst-case trace reconstruction over channels with synchronization errors. It is known that $\exp(O(n^{1/3}))$ traces are necessary and sufficient for mean-based worst-case…
In this paper we discuss reconstruction problems for graphs. We develop some new ideas like isomorphic extension of isomorphic graphs, partitioning of vertex sets into sets of equivalent points, subdeck property, etc. and develop an…
A $k$-deck of a (coloured) graph is a multiset of its induced $k$-vertex subgraphs. Given a graph $G$, when is it possible to reconstruct with high probability a uniformly random colouring of its vertices in $r$ colours from its $k$-deck?…