Algorithms and complexity analyses for some combinational optimization problems

The main focus of this dissertation is on classical combinatorial optimization problems in two important areas: scheduling and network design. In the area of scheduling, the main interest is in problems in the master-slave model. In this model, each machine is either a master machine or a slave machine. Each job is associated with a preprocessing task, a slave task and a postprocessing task that must be executed in this order. Each slave task has a dedicated slave machine. All the preprocessing and postprocessing tasks share a single master machine or the same set of master machines. A job may also have an arbitrary release time before which the preprocessing task is not available to be processed. The main objective in this dissertation is to minimize the total completion time or the makespan. Both the complexity and algorithmic issues of these problems are considered. It is shown that the problem of minimizing the total completion time is strongly NP-hard even under severe constraints. Various efficient algorithms are designed to minimize the total completion time under various scenarios. In the area of network design, the survivable network design problems are studied first. The input for this problem is an undirected graph G = (V, E), a non-negative cost for each edge, and a nonnegative connectivity requirement ruv for every (unordered) pair of vertices &ruv. The goal is to find a minimum-cost subgraph in which each pair of vertices u,v is joined by at least ruv edge (vertex)-disjoint paths. A Polynomial Time Approximation Scheme (PTAS) is designed for the problem when the graph is Euclidean and the connectivity requirement of any point is at most 2. PTASs or Quasi-PTASs are also designed for 2-edge-connectivity problem and biconnectivity problem and their variations in unweighted or weighted planar graphs. Next, the problem of constructing geometric fault-tolerant spanners with low cost and bounded maximum degree is considered. The first result shows that there is a greedy algorithm which constructs fault-tolerant spanners having asymptotically optimal bounds for both the maximum degree and the total cost at the same time. Then an efficient algorithm is developed which finds fault-tolerant spanners with asymptotically optimal bound for the maximum degree and almost optimal bound for the total cost

Recent Advances in Graph Partitioning

We survey recent trends in practical algorithms for balanced graph partitioning together with applications and future research directions

Mustererkennungsbasierte Verteidgung gegen gezielte Angriffe

The speed at which everything and everyone is being connected considerably outstrips the rate at which effective security mechanisms are introduced to protect them. This has created an opportunity for resourceful threat actors which have specialized in conducting low-volume persistent attacks through sophisticated techniques that are tailored to specific valuable targets. Consequently, traditional approaches are rendered ineffective against targeted attacks, creating an acute need for innovative defense mechanisms. This thesis aims at supporting the security practitioner in bridging this gap by introducing a holistic strategy against targeted attacks that addresses key challenges encountered during the phases of detection, analysis and response. The structure of this thesis is therefore aligned to these three phases, with each one of its central chapters taking on a particular problem and proposing a solution built on a strong foundation on pattern recognition and machine learning. In particular, we propose a detection approach that, in the absence of additional authentication mechanisms, allows to identify spear-phishing emails without relying on their content. Next, we introduce an analysis approach for malware triage based on the structural characterization of malicious code. Finally, we introduce MANTIS, an open-source platform for authoring, sharing and collecting threat intelligence, whose data model is based on an innovative unified representation for threat intelligence standards based on attributed graphs. As a whole, these ideas open new avenues for research on defense mechanisms and represent an attempt to counteract the imbalance between resourceful actors and society at large.In unserer heutigen Welt sind alle und alles miteinander vernetzt. Dies bietet mächtigen Angreifern die Möglichkeit, komplexe Verfahren zu entwickeln, die auf spezifische Ziele angepasst sind. Traditionelle Ansätze zur Bekämpfung solcher Angriffe werden damit ineffektiv, was die Entwicklung innovativer Methoden unabdingbar macht. Die vorliegende Dissertation verfolgt das Ziel, den Sicherheitsanalysten durch eine umfassende Strategie gegen gezielte Angriffe zu unterstützen. Diese Strategie beschäftigt sich mit den hauptsächlichen Herausforderungen in den drei Phasen der Erkennung und Analyse von sowie der Reaktion auf gezielte Angriffe. Der Aufbau dieser Arbeit orientiert sich daher an den genannten drei Phasen. In jedem Kapitel wird ein Problem aufgegriffen und eine entsprechende Lösung vorgeschlagen, die stark auf maschinellem Lernen und Mustererkennung basiert. Insbesondere schlagen wir einen Ansatz vor, der eine Identifizierung von Spear-Phishing-Emails ermöglicht, ohne ihren Inhalt zu betrachten. Anschliessend stellen wir einen Analyseansatz für Malware Triage vor, der auf der strukturierten Darstellung von Code basiert. Zum Schluss stellen wir MANTIS vor, eine Open-Source-Plattform für Authoring, Verteilung und Sammlung von Threat Intelligence, deren Datenmodell auf einer innovativen konsolidierten Graphen-Darstellung für Threat Intelligence Stardards basiert. Wir evaluieren unsere Ansätze in verschiedenen Experimenten, die ihren potentiellen Nutzen in echten Szenarien beweisen. Insgesamt bereiten diese Ideen neue Wege für die Forschung zu Abwehrmechanismen und erstreben, das Ungleichgewicht zwischen mächtigen Angreifern und der Gesellschaft zu minimieren

On the role of entropy in the protein folding process

A protein's ultimate function and activity is determined by the unique three-dimensional structure taken by the folding process. Protein malfunction due to misfolding is the culprit of many clinical disorders, such as abnormal protein aggregations. This leads to neurodegenerative disorders likeHuntington's and Alzheimer's disease. We focus on a subset of the folding problem, exploring the role and effects of entropy on the process of protein folding. Four major concepts and models are developed and each pertains to a specfic aspect of the folding process: entropic forces, conformationalstates under crowding, aggregation, and macrostate kinetics from microstate trajectories.The exclusive focus on entropy is well-suited for crowding studies, as many interactions are nonspecific. We show how a stabilizing entropic force can arise purely from the motion of crowders in solution. In addition we are able to make a a quantitative prediction of the crowding effect with animplicit crowding approximation using an aspherical scaled-particle theory.In order to investigate the effects of aggregation, we derive a new operator expansion method to solve the Ising/Potts model with external fields over an arbitrary graph. Here the external fields are representative of the entropic forces. We show that this method reduces the problem of calculating the partition function to the solution of recursion relations.Many of the methods employed are coarse-grained approximations. As such, it is useful to have a viable method for extracting macrostate information from time series data. We develop a method to cluster the microstates into physically meaningful macrostates by grouping similar relaxation times from a transition matrix.Overall, the studied topics allow us to understand deeper the complicated process involving proteins.Ph.D., Physics -- Drexel University, 201

Assembly Line

An assembly line is a manufacturing process in which parts are added to a product in a sequential manner using optimally planned logistics to create a finished product in the fastest possible way. It is a flow-oriented production system where the productive units performing the operations, referred to as stations, are aligned in a serial manner. The present edited book is a collection of 12 chapters written by experts and well-known professionals of the field. The volume is organized in three parts according to the last research works in assembly line subject. The first part of the book is devoted to the assembly line balancing problem. It includes chapters dealing with different problems of ALBP. In the second part of the book some optimization problems in assembly line structure are considered. In many situations there are several contradictory goals that have to be satisfied simultaneously. The third part of the book deals with testing problems in assembly line. This section gives an overview on new trends, techniques and methodologies for testing the quality of a product at the end of the assembling line

Proceedings of the 8th Cologne-Twente Workshop on Graphs and Combinatorial Optimization

International audienceThe Cologne-Twente Workshop (CTW) on Graphs and Combinatorial Optimization started off as a series of workshops organized bi-annually by either Köln University or Twente University. As its importance grew over time, it re-centered its geographical focus by including northern Italy (CTW04 in Menaggio, on the lake Como and CTW08 in Gargnano, on the Garda lake). This year, CTW (in its eighth edition) will be staged in France for the first time: more precisely in the heart of Paris, at the Conservatoire National d’Arts et Métiers (CNAM), between 2nd and 4th June 2009, by a mixed organizing committee with members from LIX, Ecole Polytechnique and CEDRIC, CNAM

Geometric, Feature-based and Graph-based Approaches for the Structural Analysis of Protein Binding Sites : Novel Methods and Computational Analysis

In this thesis, protein binding sites are considered. To enable the extraction of information from the space of protein binding sites, these binding sites must be mapped onto a mathematical space. This can be done by mapping binding sites onto vectors, graphs or point clouds. To finally enable a structure on the mathematical space, a distance measure is required, which is introduced in this thesis. This distance measure eventually can be used to extract information by means of data mining techniques