A comparative study between molecular and agro-morphological methods for describing genetic relationships in Tunisian faba bean populations

This study aimed to compare the genetic diversity of nine Tunisian faba bean populations by using 27 agro-morphological traits and sequence-specific amplification polymorphism (SSAP) markers. Results showed that faba bean populations exhibited a significant amount of variation for their agro-morphological studied parameters. Different populations were assigned into three groups based mainly on seed size. Furthermore, genetic variability among populations using SSAP markers showed that the average percentage of polymorphic loci for all population was 49.5% and the average Shannon’s diversity index was 0.21. The relationships between agro-morphological traits variation and SSAP markers variation were estimated using Mantel test. Experimental results showed low correlation between them (r=0.08). Therefore, these two techniques reveal different aspects of the diversity of faba bean, demonstrating that agro-morphological characters are not good markers for overall genetic variation and SSAP markers can resolve plant groups defined by visible traits

A Reconfigurable Vector Instruction Processor for Accelerating a Convection Parametrization Model on FPGAs

High Performance Computing (HPC) platforms allow scientists to model computationally intensive algorithms. HPC clusters increasingly use General-Purpose Graphics Processing Units (GPGPUs) as accelerators; FPGAs provide an attractive alternative to GPGPUs for use as co-processors, but they are still far from being mainstream due to a number of challenges faced when using FPGA-based platforms. Our research aims to make FPGA-based high performance computing more accessible to the scientific community. In this work we present the results of investigating the acceleration of a particular atmospheric model, Flexpart, on FPGAs. We focus on accelerating the most computationally intensive kernel from this model. The key contribution of our work is the architectural exploration we undertook to arrive at a solution that best exploits the parallelism available in the legacy code, and is also convenient to program, so that eventually the compilation of high-level legacy code to our architecture can be fully automated. We present the three different types of architecture, comparing their resource utilization and performance, and propose that an architecture where there are a number of computational cores, each built along the lines of a vector instruction processor, works best in this particular scenario, and is a promising candidate for a generic FPGA-based platform for scientific computation. We also present the results of experiments done with various configuration parameters of the proposed architecture, to show its utility in adapting to a range of scientific applications.Comment: This is an extended pre-print version of work that was presented at the international symposium on Highly Efficient Accelerators and Reconfigurable Technologies (HEART2014), Sendai, Japan, June 911, 201

Improved detection of Probe Request Attacks : Using Neural Networks and Genetic Algorithm

The Media Access Control (MAC) layer of the wireless protocol, Institute of Electrical and Electronics Engineers (IEEE) 802.11, is based on the exchange of request and response messages. Probe Request Flooding Attacks (PRFA) are devised based on this design flaw to reduce network performance or prevent legitimate users from accessing network resources. The vulnerability is amplified due to clear beacon, probe request and probe response frames. The research is to detect PRFA of Wireless Local Area Networks (WLAN) using a Supervised Feedforward Neural Network (NN). The NN converged outstandingly with train, valid, test sample percentages 70, 15, 15 and hidden neurons 20. The effectiveness of an Intruder Detection System depends on its prediction accuracy. This paper presents optimisation of the NN using Genetic Algorithms (GA). GAs sought to maximise the performance of the model based on Linear Regression (R) and generated R > 0.95. Novelty of this research lies in the fact that the NN accepts user and attacker training data captured separately. Hence, security administrators do not have to perform the painstaking task of manually identifying individual frames for labelling prior training. The GA provides a reliable NN model and recognises the behaviour of the NN for diverse configurations

Combined Human, Antenna Orientation in Elevation Direction and Ground Effect on RSSI in Wireless Sensor Networks

In this paper, we experimentally investigate the combined effect of human, antenna orientation in elevation direction and the ground effect on the Received Signal Strength Indicator (RSSI) parameter in the Wireless Sensor Network (WSN). In experiment, we use MICAz motes and consider different scenarios where antenna of the transmitter node is tilted in elevation direction. The motes were placed on the ground to take into account the ground effect on the RSSI. The effect of one, two and four persons on the RSSI is recorded. For one and two persons, different walking paces e.g. slow, medium and fast pace, are analysed. However, in case of four persons, random movement is carried out between the pair of motes. The experimental results show that some antenna orientation angles have drastic effect on the RSSI, even without any human activity. The fluctuation count and range of RSSI in different scenarios with same walking pace are completely different. Therefore, an efficient human activity algorithm is need that effectively takes into count the antenna elevation and other parameters to accurately detect the human activity in the WSN deployment region.Comment: 10th IEEE International Conference on Frontiers of Information Technology (FIT 12), 201

On the role of correspondence noise in human visual motion perception. A systematic study on the role of correspondence noise affecting Dmax and Dmin, using random dot kinematograms: A psychophysical and modelling approach.

One of the major goals of this thesis is to investigate the extent to which correspondence noise, (i.e., the false pairing of dots in adjacent frames) limits motion detection performance in random dot kinematograms (RDKs). The performance measures of interest are Dmax and Dmin i.e., the largest and smallest inter-frame dot displacement, respectively, for which motion can be reliably detected. Dmax and threshold coherence (i.e., the smallest proportion of dots that must be moved between frames for motion to be reliably detected) in RDKs are known to be affected by false pairing or correspondence noise. Here the roles of correspondence noise and receptive field geometry in limiting performance are investigated. The range of Dmax observed in the literature is consistent with the current information-limit based interpretation. Dmin is interpreted in the light of correspondence noise and under-sampling. Based on the psychophysical experiments performed in the early parts of the dissertation, a model for correspondence noise based on the principle of receptive field scaling is developed for Dmax. Model simulations provide a good account of psychophysically estimated Dmax over a range of stimulus parameters, showing that correspondence noise and receptive field geometry have a major influence on displacement thresholds

Hydrogen Bond-Mediated Structural Order in Hydroxylated bis-MPA Dendritic Polymers: Experimental and Molecular Dynamics Simulation Study

Dendritic architectures are echoed throughout nature. While the significance of these pervasive patterns is not entirely clear, connections between their structures and physical properties are fascinating to contemplate. Particular interest has been paid to a family of synthetically manufactured and commercially available dendritic polymers based on 2,2-bis(hydroxymethyl) propionic acid (bis-MPA) as a monomer. Composed of two hydroxyls and a carboxyl group, bis-MPA based structures hydrogen bond (H-bond) profusely. Given the high concentration and unique spatial orientation of end-groups, as well as the multitude of carbonyl, ester, and ether interior H-bond acceptors, a set of distinct H-bond organizations may be observed for these dendritic systems. The purpose of this dissertation was to elucidate the H-bond organizations in relation to bulk thermal and free volume properties of bis-MPA based dendritic polymers, with an emphasis on developing a fundamental understanding of the extent to which randomly branched hyperbranched polymers (HBPs) of this type compare to perfectly branched dendrimers. Chapter I of this dissertation provided a background of dendritic architectures, specifically those based on bis-MPA, relevant structure-property relationships, including those related to H-bonding, and a brief synopsis of molecular dynamics (MD) type computer simulations. In Chapter II, atomistic simulations of bis-MPA dendrimers and HBPs allowed the visualization of the globular molecular shape and end-group distribution of these complicated architectures. Through synergistic efforts of experiments and computer simulations “chain-like clusters” of O-H∙∙∙O groups were found to pervade the bulk structure of both dendrimers and HBPs. Because these clusters bore remarkable similarity to analogous H-bond organizations in structural fluids such as water and hydrogen fluoride, it was speculated that the chain-like clusters may be responsible for specific favorable bulk physical properties of bis-MPA dendrimers. In Chapter III, the imperfect branching of the HBP was found to lead to a H-bond organization which was not prevalent in the perfectly branched analogous dendrimers, highlighting a fundamental structure-property difference between the two systems. The linear unit imperfections in the HBP were instrumental in forming a H-bond driven mesophase, which was composed of pseudo-hexagonally packed, parallel and straight, laterally H-bonded linear chain segments with cylindrical symmetry. The dynamics of mesophase ordering upon annealing were also revealed. In Chapter IV, the effect of H-bond ordering and generation number on the volumetric and thermodynamic parameters of bis-MPA based HBPs was addressed. Pressure-volume-temperature (PVT) properties were simulated and experimentally probed. The simulated bulk volumetric and thermodynamic properties were approximately similar to analogous experimental parameters, supporting that MD simulations can predict bulk properties of dendritic polymers. Thus, as the significance of dendritic architectures continues to be a mystery, the current understanding of the structure-property relationships of these fractal macromolecules has been improved through this dissertation work

MPEG-4 video transmission using distributed TDMA MAC protocol over IEEE 802.15.4 wireless technology

The issues of green technology nowadays give an inspiration to the researcher to make all the future design to be energy efficient. Medium Access Control (MAC) layer is the most effective layer to provide energy efficient due to its ability to control the physical radio directly. One of the important applications in the future is a video transmission that can be transmitted with low-cost and low power consumption. MPEG-4 is one of the international standards for moving video. MPEG-4 provide better compression and primarily design at low bit rate communication. In order to achieve good quality for video application, the design at MAC layer must be strong. Therefore, to increase the performance of the MPEG-4 in IEEE 802.15.4, in this paper we propose a cross layer design between MAC layer and Application layer. A priority queue will be implemented at MAC scheduling depends on the level of frame important in MPEG-4 format frame. A distributed Time division Multiple Access (TDMA) will be used for MAC protocol to provide reliable data transmission for high priority frame

On the Merits of Deploying TDM-based Next-Generation PON Solutions in the Access Arena As Multiservice, All Packet-Based 4G Mobile Backhaul RAN Architecture

The phenomenal growth of mobile backhaul capacity required to support the emerging fourth-generation (4G) traffic including mobile WiMAX, cellular Long-Term Evolution (LTE), and LTE-Advanced (LTE-A) requires rapid migration from today\u27s legacy circuit switched T1/E1 wireline and microwave backhaul technologies to a new fiber-supported, all-packet-based mobile backhaul infrastructure. Clearly, a cost effective fiber supported all-packet-based mobile backhaul radio access network (RAN) architecture that is compatible with these inherently distributed 4G RAN architectures is needed to efficiently scale current mobile backhaul networks. However, deploying a green fiber-based mobile backhaul infrastructure is a costly proposition mainly due to the significant cost associated with digging the trenches in which the fiber is to be laid. These, along with the inevitable trend towards all-IP/Ethernet transport protocols and packet switched networks, have prompted many carriers around the world to consider the potential of utilizing the existing fiber-based Passive Optical Network (PON) access infrastructure as an all-packet-based converged fixed-mobile optical access networking transport architecture to backhaul both mobile and typical wireline traffic. Passive Optical Network (PON)-based fiber-to-the-curb/home (FTTC/FTTH) access networks are being deployed around the globe based on two Time-Division Multiplexed (TDM) standards: ITU G.984 Gigabit PON (GPON) and IEEE 802.ah Ethernet PON (EPON). A PON connects a group of Optical Network Units (ONUs) located at the subscriber premises to an Optical Line Terminal (OLT) located at the service provider\u27s facility. It is the purpose of this thesis to examine the technological requirements and assess the performance analysis and feasibility for deploying TDM-based next-generation (NG) PON solutions in the access arena as multiservice, all packet-based 4G mobile backhaul RAN and/or converged fixed-mobile optical networking architecture. Specifically, this work proposes and devises a simple and cost-effective 10G-EPON-based 4G mobile backhaul RAN architecture that efficiently transports and supports a wide range of existing and emerging fixed-mobile advanced multimedia applications and services along with the diverse quality of service (QoS), rate, and reliability requirements set by these services. The techno-economics merits of utilizing PON-based 4G RAN architecture versus that of traditional 4G (mobile WiMAX and LTE) RAN will be thoroughly examine and quantified. To achieve our objective, we utilize the existing fiber-based PON access infrastructure with novel ring-based distribution access network and wireless-enabled OLT and ONUs as the multiservice packet-based 4G mobile backhaul RAN infrastructure. Specifically, to simplify the implementation of such a complex undertaking, this work is divided into two sequential phases. In the first phase, we examine and quantify the overall performance of the standalone ring-based 10G-EPON architecture (just the wireline part without overlaying/incorporating the wireless part (4G RAN)) via modeling and simulations. We then assemble the basic building blocks, components, and sub-systems required to build up a proof-of-concept prototype testbed for the standalone ring-based EPON architecture. The testbed will be used to verify and demonstrate the performance of the standalone architecture, specifically, in terms of power budget, scalability, and reach. In the second phase, we develop an integrated framework for the efficient interworking between the two wireline PON and 4G mobile access technologies, particularly, in terms of unified network control and management (NCM) operations. Specifically, we address the key technical challenges associated with tailoring a typically centralized PON-based access architecture to interwork with and support a distributed 4G RAN architecture and associated radio NCM operations. This is achieved via introducing and developing several salient-networking innovations that collectively enable the standalone EPON architecture to support a fully distributed 4G mobile backhaul RAN and/or a truly unified NG-PON-4G access networking architecture. These include a fully distributed control plane that enables intercommunication among the access nodes (ONUs/BSs) as well as signaling, scheduling algorithms, and handoff procedures that operate in a distributed manner. Overall, the proposed NG-PON architecture constitutes a complete networking paradigm shift from the typically centralized PON\u27s architecture and OLT-based NCM operations to a new disruptive fully distributed PON\u27s architecture and NCM operations in which all the typically centralized OLT-based PON\u27s NCM operations are migrated to and independently implemented by the access nodes (ONUs) in a distributed manner. This requires migrating most of the typically centralized wireline and radio control and user-plane functionalities such as dynamic bandwidth allocation (DBA), queue management and packet scheduling, handover control, radio resource management, admission control, etc., typically implemented in today\u27s OLT/RNC, to the access nodes (ONUs/4G BSs). It is shown that the overall performance of the proposed EPON-based 4G backhaul including both the RAN and Mobile Packet Core (MPC) {Evolved Packet Core (EPC) per 3GPP LTE\u27s standard} is significantly augmented compared to that of the typical 4G RAN, specifically, in terms of handoff capability, signaling overhead, overall network throughput and latency, and QoS support. Furthermore, the proposed architecture enables redistributing some of the intelligence and NCM operations currently centralized in the MPC platform out into the access nodes of the mobile RAN. Specifically, as this work will show, it enables offloading sizable fraction of the mobile signaling as well as actual local upstream traffic transport and processing (LTE bearers switch/set-up, retain, and tear-down and associated signaling commands from the BSs to the EPC and vice-versa) from the EPC to the access nodes (ONUs/BSs). This has a significant impact on the performance of the EPC. First, it frees up a sizable fraction of the badly needed network resources as well as processing on the overloaded centralized serving nodes (AGW) in the MPC. Second, it frees up capacity and sessions on the typically congested mobile backhaul from the BSs to the EPC and vice-versa

Polo like kinase 2 tumour suppressor and cancer biomarker: new perspectives on drug sensitivity/resistance in ovarian cancer

The polo-like kinase PLK2 has recently been identified as a potential theranostic marker in the management of chemotherapy sensitive cancers. The methylation status of the PLK2 CpG island varies with sensitivity to paclitaxel and platinum in ovarian cancer cell lines. Importantly, extrapolation of these in vitro data to the clinical setting confirms that the methylation status of the PLK2 CpG island predicts outcomes in patients treated with carboplatin and paclitaxel chemotherapy. A second cell cycle regulator, p57Kip2, is also subject to epigenetic silencing in carboplatin resistance in vitro and in vivo, emphasising that cell cycle regulators are important determinants of sensitivity to chemotherapeutic agents and providing insights into the phenomenon of collateral drug sensitivity in oncology. Understanding the mechanistic basis and identification of robust biomarkers to predict collateral sensitivity may inform optimal use of chemotherapy in patients receiving multiple lines of treatment