Biomarker discovery and redundancy reduction towards classification using a multi-factorial MALDI-TOF MS T2DM mouse model dataset

Diabetes like many diseases and biological processes is not mono-causal. On the one hand multifactorial studies with complex experimental design are required for its comprehensive analysis. On the other hand, the data from these studies often include a substantial amount of redundancy such as proteins that are typically represented by a multitude of peptides. Coping simultaneously with both complexities (experimental and technological) makes data analysis a challenge for Bioinformatics

Big data clustering using grid computing and ant-based algorithm

Big data has the power to dramatically change the way institutes and organizations use their data. Transforming the massive amounts of data into knowledge will leverage the organizations performance to the maximum.Scientific and business organizations would benefit from utilizing big data. However, there are many challenges in dealing with big data such as storage, transfer, management and manipulation of big data.Many techniques are required to explore the hidden pattern inside the big data which have limitations in terms of hardware and software implementation. This paper presents a framework for big data clustering which utilizes grid technology and ant-based algorithm

Multi-objective ant colony optimization for the twin-screw configuration problem

The Twin-Screw Configuration Problem (TSCP) consists in identifying the best location of a set of available screw elements along a screw shaft. Due to its combinatorial nature, it can be seen as a sequencing problem. In addition, different conflicting objectives may have to be considered when defining a screw configuration and, thus, it is usually tackled as a multi-objective optimization problem. In this research, a multi-objective ant colony optimization (MOACO) algorithm was adapted to deal with the TSCP. The influence of different parameters of the MOACO algorithm was studied and its performance was compared with that of a previously proposed multi-objective evolutionary algorithm and a two-phase local search algorithm. The experimental results showed that MOACO algorithms have a significant potential for solving the TSCP.This work has been supported by the Portuguese Fundacao para a Ciencia e Tecnologia under PhD grant SFRH/BD/21921/2005. Thomas Stutzle acknowledges support of the Belgian F.R.S-FNRS of which he is a research associate, the E-SWARM project, funded by an ERC Advanced Grant, and by the Meta-X project, funded by the Scientific Research Directorate of the French Community of Belgium

A Hybrid Cluster and Chain-based Routing Protocol for Lifetime Improvement

International audienceThe main challenge in the field of Wireless Sensor Networks (WSNs) is the energy conservation as long as possible. Clustering paradigm has proven its ability to prolong the network lifetime. The present paper proposes two algorithms using an approach that combines fuzzy c-means and ant colony optimization to form the clusters and manage the transmission of data in the network. First, fuzzy c-means is used to construct a predefined number of clusters. Second, we apply Ant Colony Optimization (ACO) algorithm to form a local shortest chain in each cluster. A leader node is randomly chosen at the beginning since all cluster nodes have the same amount of energy. In the next transmission, a remaining energy parameter is employed to select leader node. In the first algorithm, leader nodes transmit data in single hop to the distant base station (BS) while in the second the ACO algorithm is applied again to form a global chain between leader nodes and the BS. Simulation results show that the second proposed algorithm consumes less energy and effectively prolongs the network lifetime compared respectively with the first proposed and the LEACH algorithms

Investigating Evaluation Measures in Ant Colony Algorithms for Learning Decision Tree Classifiers

Ant-Tree-Miner is a decision tree induction algorithm that is based on the Ant Colony Optimization (ACO) meta- heuristic. Ant-Tree-Miner-M is a recently introduced extension of Ant-Tree-Miner that learns multi-tree classification models. A multi-tree model consists of multiple decision trees, one for each class value, where each class-based decision tree is responsible for discriminating between its class value and all other values present in the class domain (one vs. all). In this paper, we investigate the use of 10 different classification quality evaluation measures in Ant-Tree-Miner-M, which are used for both candidate model evaluation and model pruning. Our experimental results, using 40 popular benchmark datasets, identify several quality functions that substantially improve on the simple Accuracy quality function that was previously used in Ant-Tree-Miner-M

Energy Efficient Ant Colony Algorithms for Data Aggregation in Wireless Sensor Networks

In this paper, a family of ant colony algorithms called DAACA for data aggregation has been presented which contains three phases: the initialization, packet transmission and operations on pheromones. After initialization, each node estimates the remaining energy and the amount of pheromones to compute the probabilities used for dynamically selecting the next hop. After certain rounds of transmissions, the pheromones adjustment is performed periodically, which combines the advantages of both global and local pheromones adjustment for evaporating or depositing pheromones. Four different pheromones adjustment strategies are designed to achieve the global optimal network lifetime, namely Basic-DAACA, ES-DAACA, MM-DAACA and ACS-DAACA. Compared with some other data aggregation algorithms, DAACA shows higher superiority on average degree of nodes, energy efficiency, prolonging the network lifetime, computation complexity and success ratio of one hop transmission. At last we analyze the characteristic of DAACA in the aspects of robustness, fault tolerance and scalability.Comment: To appear in Journal of Computer and System Science

Opportunistic data collection and routing in segmented wireless sensor networks

La surveillance régulière des opérations dans les aires de manoeuvre (voies de circulation et pistes) et aires de stationnement d'un aéroport est une tâche cruciale pour son fonctionnement. Les stratégies utilisées à cette fin visent à permettre la mesure des variables environnementales, l'identification des débris (FOD) et l'enregistrement des statistiques d'utilisation de diverses sections de la surface. Selon un groupe de gestionnaires et contrôleurs d'aéroport interrogés, cette surveillance est un privilège des grands aéroports en raison des coûts élevés d'acquisition, d'installation et de maintenance des technologies existantes. Les moyens et petits aéroports se limitent généralement à la surveillance de quelques variables environnementales et des FOD effectuée visuellement par l'homme. Cette dernière activité impose l'arrêt du fonctionnement des pistes pendant l'inspection. Dans cette thèse, nous proposons une solution alternative basée sur les réseaux de capteurs sans fil (WSN) qui, contrairement aux autres méthodes, combinent les propriétés de faible coût d'installation et maintenance, de déploiement rapide, d'évolutivité tout en permettant d'effectuer des mesures sans interférer avec le fonctionnement de l'aéroport. En raison de la superficie d'un aéroport et de la difficulté de placer des capteurs sur des zones de transit, le WSN se composerait d'une collection de sous-réseaux isolés les uns des autres et du puits. Pour gérer cette segmentation, notre proposition s'appuie sur l'utilisation opportuniste des véhicules circulants dans l'aéroport considérés alors comme un type spécial de nœud appelé Mobile Ubiquitous LAN Extension (MULE) chargé de collecter les données des sous-réseaux le long de son trajet et de les transférer vers le puits. L'une des exigences pour le déploiement d'un nouveau système dans un aéroport est qu'il cause peu ou pas d'interruption des opérations régulières. C'est pourquoi l'utilisation d'une approche opportuniste basé sur des MULE est privilégiée dans cette thèse. Par opportuniste, nous nous référons au fait que le rôle de MULE est joué par certains des véhicules déjà existants dans un aéroport et effectuant leurs déplacements normaux. Et certains nœuds des sous- réseaux exploiteront tout moment de contact avec eux pour leur transmettre les données à transférer ensuite au puits. Une caractéristique des MULEs dans notre application est qu'elles ont des trajectoires structurées (suivant les voies de circulation dans l'aéroport), en ayant éventuellement un contact avec l'ensemble des nœuds situés le long de leur trajet (appelés sous-puits). Ceci implique la nécessité de définir une stratégie de routage dans chaque sous-réseau, capable d'acheminer les données collectées des nœuds vers les sous-puits et de répartir les paquets de données entre eux afin que le temps en contact avec la MULE soit utilisé le plus efficacement possible. Dans cette thèse, nous proposons un protocole de routage remplissant ces fonctions. Le protocole proposé est nommé ACME (ACO-based routing protocol for MULE-assisted WSNs). Il est basé sur la technique d'Optimisation par Colonies de Fourmis. ACME permet d'assigner des nœuds à des sous-puits puis de définir les chemins entre eux, en tenant compte de la minimisation de la somme des longueurs de ces chemins, de l'équilibrage de la quantité de paquets stockés par les sous-puits et du nombre total de retransmissions. Le problème est défini comme une tâche d'optimisation multi-objectif qui est résolue de manière distribuée sur la base des actions des nœuds dans un schéma collaboratif. Nous avons développé un environnement de simulation et effectué des campagnes de calculs dans OMNeT++ qui montrent les avantages de notre protocole en termes de performances et sa capacité à s'adapter à une grande variété de topologies de réseaux.The regular monitoring of operations in both movement areas (taxiways and runways) and non-movement areas (aprons and aircraft parking spots) of an airport, is a critical task for its functioning. The set of strategies used for this purpose include the measurement of environmental variables, the identification of foreign object debris (FOD), and the record of statistics of usage for diverse sections of the surface. According to a group of airport managers and controllers interviewed by us, the wide monitoring of most of these variables is a privilege of big airports due to the high acquisition, installation and maintenance costs of most common technologies. Due to this limitation, smaller airports often limit themselves to the monitoring of environmental variables at some few spatial points and the tracking of FOD performed by humans. This last activity requires stopping the functioning of the runways while the inspection is conducted. In this thesis, we propose an alternative solution based on Wireless Sensor Network (WSN) which, unlike the other methods/technologies, combines the desirable properties of low installation and maintenance cost, scalability and ability to perform measurements without interfering with the regular functioning of the airport. Due to the large extension of an airport and the difficulty of placing sensors over transit areas, the WSN might result segmented into a collection of subnetworks isolated from each other and from the sink. To overcome this problem, our proposal relies on a special type of node called Mobile Ubiquitous LAN Extension (MULE), able to move over the airport surface, gather data from the subnetworks along its way and eventually transfer it to the sink. One of the main demands for the deployment of any new system in an airport is that it must have little or no interference with the regular operations. This is why the use of an opportunistic approach for the transfer of data from the subnetworks to the MULE is favored in this thesis. By opportunistic we mean that the role of MULE will be played by some of the typical vehicles already existing in an airport doing their normal displacements, and the subnetworks will exploit any moment of contact with them to forward data to the sink. A particular characteristic of the MULEs in our application is that they move along predefined structured trajectories (given by the layout of the airport), having eventual contact with the set of nodes located by the side of the road (so-called subsinks). This implies the need for a data routing strategy to be used within each subnetwork, able to lead the collected data from the sensor nodes to the subsinks and distribute the data packets among them so that the time in contact with the MULE is used as efficiently as possible. In this thesis, we propose a routing protocol which undertakes this task. Our proposed protocol is named ACME, standing for ACO-based routing protocol for MULE-assisted WSNs. It is founded on the well known Ant Colony Optimization (ACO) technique. The main advantage of ACO is its natural fit to the decentralized nature of WSN, which allows it to perform distributed optimizations (based on local interactions) leading to remarkable overall network performance. ACME is able to assign sensor nodes to subsinks and generate the corresponding multi-hop paths while accounting for the minimization of the total path length, the total subsink imbalance and the total number of retransmissions. The problem is defined as a multi-objective optimization task which is resolved in a distributed manner based on actions of the sensor nodes acting in a collaborative scheme. We conduct a set of computational experiments in the discrete event simulator OMNeT++ which shows the advantages of our protocol in terms of performance and its ability to adapt to a variety of network topologie