Finding a length-constrained maximum-sum or maximum-density subtree and its application to logistics

AbstractWe study the problem of finding a length-constrained maximum-density path in a tree with weight and length on each edge. This problem was proposed in [R.R. Lin, W.H. Kuo, K.M. Chao, Finding a length-constrained maximum-density path in a tree, Journal of Combinatorial Optimization 9 (2005) 147–156] and solved in O(nU) time when the edge lengths are positive integers, where n is the number of nodes in the tree and U is the length upper bound of the path. We present an algorithm that runs in O(nlog2n) time for the generalized case when the edge lengths are positive real numbers, which indicates an improvement when U=Ω(log2n). The complexity is reduced to O(nlogn) when edge lengths are uniform. In addition, we study the generalized problems of finding a length-constrained maximum-sum or maximum-density subtree in a given tree or graph, providing algorithmic and complexity results

The Power of Dynamic Distance Oracles: Efficient Dynamic Algorithms for the Steiner Tree

In this paper we study the Steiner tree problem over a dynamic set of terminals. We consider the model where we are given an $n$-vertex graph $G=(V,E,w)$ with positive real edge weights, and our goal is to maintain a tree which is a good approximation of the minimum Steiner tree spanning a terminal set $S \subseteq V$, which changes over time. The changes applied to the terminal set are either terminal additions (incremental scenario), terminal removals (decremental scenario), or both (fully dynamic scenario). Our task here is twofold. We want to support updates in sublinear $o(n)$ time, and keep the approximation factor of the algorithm as small as possible. We show that we can maintain a $(6+\varepsilon)$-approximate Steiner tree of a general graph in $\tilde{O}(\sqrt{n} \log D)$ time per terminal addition or removal. Here, $D$ denotes the stretch of the metric induced by $G$. For planar graphs we achieve the same running time and the approximation ratio of $(2+\varepsilon)$. Moreover, we show faster algorithms for incremental and decremental scenarios. Finally, we show that if we allow higher approximation ratio, even more efficient algorithms are possible. In particular we show a polylogarithmic time $(4+\varepsilon)$-approximate algorithm for planar graphs. One of the main building blocks of our algorithms are dynamic distance oracles for vertex-labeled graphs, which are of independent interest. We also improve and use the online algorithms for the Steiner tree problem.Comment: Full version of the paper accepted to STOC'1

Improved Parallel Algorithms for Spanners and Hopsets

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 the decomposed pieces. We weaken these bounds in favor of stronger local probabilistic guarantees. This allows more direct analyses of the overall process, giving: * Linear work parallel algorithms that construct spanners with $O(k)$ stretch and size $O(n^{1+1/k})$ in unweighted graphs, and size $O(n^{1+1/k} \log k)$ in weighted graphs. * Hopsets that lead to the first parallel algorithm for approximating shortest paths in undirected graphs with $O(m\;\mathrm{polylog}\;n)$ work

Design, Analysis and Computation in Wireless and Optical Networks

abstract: In the realm of network science, many topics can be abstracted as graph problems, such as routing, connectivity enhancement, resource/frequency allocation and so on. Though most of them are NP-hard to solve, heuristics as well as approximation algorithms are proposed to achieve reasonably good results. Accordingly, this dissertation studies graph related problems encountered in real applications. Two problems studied in this dissertation are derived from wireless network, two more problems studied are under scenarios of FIWI and optical network, one more problem is in Radio- Frequency Identification (RFID) domain and the last problem is inspired by satellite deployment. The objective of most of relay nodes placement problems, is to place the fewest number of relay nodes in the deployment area so that the network, formed by the sensors and the relay nodes, is connected. Under the fixed budget scenario, the expense involved in procuring the minimum number of relay nodes to make the network connected, may exceed the budget. In this dissertation, we study a family of problems whose goal is to design a network with “maximal connectedness” or “minimal disconnectedness”, subject to a fixed budget constraint. Apart from “connectivity”, we also study relay node problem in which degree constraint is considered. The balance of reducing the degree of the network while maximizing communication forms the basis of our d-degree minimum arrangement(d-MA) problem. In this dissertation, we look at several approaches to solving the generalized d-MA problem where we embed a graph onto a subgraph of a given degree. In recent years, considerable research has been conducted on optical and FIWI networks. Utilizing a recently proposed concept “candidate trees” in optical network, this dissertation studies counting problem on complete graphs. Closed form expressions are given for certain cases and a polynomial counting algorithm for general cases is also presented. Routing plays a major role in FiWi networks. Accordingly to a novel path length metric which emphasizes on “heaviest edge”, this dissertation proposes a polynomial algorithm on single path computation. NP-completeness proof as well as approximation algorithm are presented for multi-path routing. Radio-frequency identification (RFID) technology is extensively used at present for identification and tracking of a multitude of objects. In many configurations, simultaneous activation of two readers may cause a “reader collision” when tags are present in the intersection of the sensing ranges of both readers. This dissertation ad- dresses slotted time access for Readers and tries to provide a collision-free scheduling scheme while minimizing total reading time. Finally, this dissertation studies a monitoring problem on the surface of the earth for significant environmental, social/political and extreme events using satellites as sensors. It is assumed that the impact of a significant event spills into neighboring regions and there will be corresponding indicators. Careful deployment of sensors, utilizing “Identifying Codes”, can ensure that even though the number of deployed sensors is fewer than the number of regions, it may be possible to uniquely identify the region where the event has taken place.Dissertation/ThesisDoctoral Dissertation Computer Science 201

Robust randomized matchings

The following game is played on a weighted graph: Alice selects a matching $M$ and Bob selects a number $k$. Alice's payoff is the ratio of the weight of the $k$ heaviest edges of $M$ to the maximum weight of a matching of size at most $k$. If $M$ guarantees a payoff of at least $\alpha$ then it is called $\alpha$-robust. In 2002, Hassin and Rubinstein gave an algorithm that returns a $1/\sqrt{2}$-robust matching, which is best possible. We show that Alice can improve her payoff to $1/\ln(4)$ by playing a randomized strategy. This result extends to a very general class of independence systems that includes matroid intersection, b-matchings, and strong 2-exchange systems. It also implies an improved approximation factor for a stochastic optimization variant known as the maximum priority matching problem and translates to an asymptotic robustness guarantee for deterministic matchings, in which Bob can only select numbers larger than a given constant. Moreover, we give a new LP-based proof of Hassin and Rubinstein's bound

An algorithmic approach to continuous location

Bibliography: pages 126-130.We survey the p-median problem and the p-centre problem. Then we investigate two new techniques for continuous optimal partitioning of a tree T with n - 1 edges, where a nonnegative rational valued weight is associated with each edge. The continuous Max-Min tree partition problem (the continuous Min-Max tree partition problem) is to cut the edges in p - 1 places, so as to maximize (respectively minimize) the weight of the lightest (respectively heaviest) resulting subtree. Thus the tree is partitioned into approximately equal components. For each optimization problem, an inefficient implementation of the algorithm is given, which runs in pseudo-polynomial time, using a previously developed algorithm and a construction. We then derive from it a much faster algorithm using a top-down greedy technique, which runs in polynomial time. The algorithms have a variety of applications among others to highway and pipeline maintenance

Inferring phylogenetic trees under the general Markov model via a minimum spanning tree backbone

Phylogenetic trees are models of the evolutionary relationships among species, with species typically placed at the leaves of trees. We address the following problems regarding the calculation of phylogenetic trees. (1) Leaf-labeled phylogenetic trees may not be appropriate models of evolutionary relationships among rapidly evolving pathogens which may contain ancestor-descendant pairs. (2) The models of gene evolution that are widely used unrealistically assume that the base composition of DNA sequences does not evolve. Regarding problem (1) we present a method for inferring generally labeled phylogenetic trees that allow sampled species to be placed at non-leaf nodes of the tree. Regarding problem (2), we present a structural expectation maximization method (SEM-GM) for inferring leaf-labeled phylogenetic trees under the general Markov model (GM) which is the most complex model of DNA substitution that allows the evolution of base composition. In order to improve the scalability of SEM-GM we present a minimum spanning tree (MST) framework called MST-backbone. MST-backbone scales linearly with the number of leaves. However, the unrealistic location of the root as inferred on empirical data suggests that the GM model may be overtrained. MST-backbone was inspired by the topological relationship between MSTs and phylogenetic trees that was introduced by Choi et al. (2011). We discovered that the topological relationship does not necessarily hold if there is no unique MST. We propose so-called vertex-order based MSTs (VMSTs) that guarantee a topological relationship with phylogenetic trees.Phylogenetische Bäume modellieren evolutionäre Beziehungen zwischen Spezies, wobei die Spezies typischerweise an den Blättern der Bäume sitzen. Wir befassen uns mit den folgenden Problemen bei der Berechnung von phylogenetischen Bäumen. (1) Blattmarkierte phylogenetische Bäume sind möglicherweise keine geeigneten Modelle der evolutionären Beziehungen zwischen sich schnell entwickelnden Krankheitserregern, die Vorfahren-Nachfahren-Paare enthalten können. (2) Die weit verbreiteten Modelle der Genevolution gehen unrealistischerweise davon aus, dass sich die Basenzusammensetzung von DNA-Sequenzen nicht ändert. Bezüglich Problem (1) stellen wir eine Methode zur Ableitung von allgemein markierten phylogenetischen Bäumen vor, die es erlaubt, Spezies, für die Proben vorliegen, an inneren des Baumes zu platzieren. Bezüglich Problem (2) stellen wir eine strukturelle Expectation-Maximization-Methode (SEM-GM) zur Ableitung von blattmarkierten phylogenetischen Bäumen unter dem allgemeinen Markov-Modell (GM) vor, das das komplexeste Modell von DNA-Substitution ist und das die Evolution von Basenzusammensetzung erlaubt. Um die Skalierbarkeit von SEM-GM zu verbessern, stellen wir ein Minimale Spannbaum (MST)-Methode vor, die als MST-Backbone bezeichnet wird. MST-Backbone skaliert linear mit der Anzahl der Blätter. Die Tatsache, dass die Lage der Wurzel aus empirischen Daten nicht immer realistisch abgeleitet warden kann, legt jedoch nahe, dass das GM-Modell möglicherweise übertrainiert ist. MST-backbone wurde von einer topologischen Beziehung zwischen minimalen Spannbäumen und phylogenetischen Bäumen inspiriert, die von Choi et al. 2011 eingeführt wurde. Wir entdeckten, dass die topologische Beziehung nicht unbedingt Bestand hat, wenn es keinen eindeutigen minimalen Spannbaum gibt. Wir schlagen so genannte vertex-order-based MSTs (VMSTs) vor, die eine topologische Beziehung zu phylogenetischen Bäumen garantieren