Science.gov

Sample records for multi-type network approach

  1. mEducator: A Best Practice Network for Repurposing and Sharing Medical Educational Multi-type Content

    NASA Astrophysics Data System (ADS)

    Bamidis, Panagiotis D.; Kaldoudi, Eleni; Pattichis, Costas

    Although there is an abundance of medical educational content available in individual EU academic institutions, this is not widely available or easy to discover and retrieve, due to lack of standardized content sharing mechanisms. The mEducator EU project will face this lack by implementing and experimenting between two different sharing mechanisms, namely, one based one mashup technologies, and one based on semantic web services. In addition, the mEducator best practice network will critically evaluate existing standards and reference models in the field of e-learning in order to enable specialized state-of-the-art medical educational content to be discovered, retrieved, shared, repurposed and re-used across European higher academic institutions. Educational content included in mEducator covers and represents the whole range of medical educational content, from traditional instructional teaching to active learning and experiential teaching/studying approaches. It spans the whole range of types, from text to exam sheets, algorithms, teaching files, computer programs (simulators or games) and interactive objects (like virtual patients and electronically traced anatomies), while it covers a variety of topics. In this paper, apart from introducing the relevant project concepts and strategies, emphasis is also placed on the notion of (dynamic) user-generated content, its advantages and peculiarities, as well as, gaps in current research and technology practice upon its embedding into existing standards.

  2. Network growth approach to macroevolution

    NASA Astrophysics Data System (ADS)

    Qin, Shao-Meng; Chen, Yong; Zhang, Pan

    2007-07-01

    We propose a novel network growth model coupled with the competition interaction to simulate macroevolution. Our work shows that competition plays an important role in macroevolution and it is more rational to describe the interaction between species by network structures. Our model presents a complete picture of the development of phyla and the splitting process. It is found that periodic mass extinction occurred in our networks without any extraterrestrial factors and the lifetime distribution of species is very close to the fossil record. We also perturb networks with two scenarios of mass extinctions on different hierarchic levels in order to study their recovery.

  3. Process-in-Network: A Comprehensive Network Processing Approach

    PubMed Central

    Urzaiz, Gabriel; Villa, David; Villanueva, Felix; Lopez, Juan Carlos

    2012-01-01

    A solid and versatile communications platform is very important in modern Ambient Intelligence (AmI) applications, which usually require the transmission of large amounts of multimedia information over a highly heterogeneous network. This article focuses on the concept of Process-in-Network (PIN), which is defined as the possibility that the network processes information as it is being transmitted, and introduces a more comprehensive approach than current network processing technologies. PIN can take advantage of waiting times in queues of routers, idle processing capacity in intermediate nodes, and the information that passes through the network. PMID:22969390

  4. Network Medicine: A Network-based Approach to Human Diseases

    NASA Astrophysics Data System (ADS)

    Ghiassian, Susan Dina

    With the availability of large-scale data, it is now possible to systematically study the underlying interaction maps of many complex systems in multiple disciplines. Statistical physics has a long and successful history in modeling and characterizing systems with a large number of interacting individuals. Indeed, numerous approaches that were first developed in the context of statistical physics, such as the notion of random walks and diffusion processes, have been applied successfully to study and characterize complex systems in the context of network science. Based on these tools, network science has made important contributions to our understanding of many real-world, self-organizing systems, for example in computer science, sociology and economics. Biological systems are no exception. Indeed, recent studies reflect the necessity of applying statistical and network-based approaches in order to understand complex biological systems, such as cells. In these approaches, a cell is viewed as a complex network consisting of interactions among cellular components, such as genes and proteins. Given the cellular network as a platform, machinery, functionality and failure of a cell can be studied with network-based approaches, a field known as systems biology. Here, we apply network-based approaches to explore human diseases and their associated genes within the cellular network. This dissertation is divided in three parts: (i) A systematic analysis of the connectivity patterns among disease proteins within the cellular network. The quantification of these patterns inspires the design of an algorithm which predicts a disease-specific subnetwork containing yet unknown disease associated proteins. (ii) We apply the introduced algorithm to explore the common underlying mechanism of many complex diseases. We detect a subnetwork from which inflammatory processes initiate and result in many autoimmune diseases. (iii) The last chapter of this dissertation describes the

  5. Adolescent pregnancy: networking and the interdisciplinary approach.

    PubMed

    Canada, M J

    1986-01-01

    The networking approach to providing needed services to pregnant and parenting teenagers has numerous merits. An historical overview of the formation of the Brooklyn Teen Pregnancy Network highlights service agency need for information and resource sharing, and improved client referral systems as key factors in the genesis of the Network. The borough-wide approach and its spread as an agency model throughout New York City's other boroughs and several other northeastern cities is also attributed to its positive client impact, including: improved family communication and cooperation; early prenatal care with its concomitant improved pregnancy outcomes; financial support for teens; continued teen education; and parenting skills development. Resource information is provided regarding networks operating in the Greater New York metropolitan area. A planned Eastern Regional network initiative is under development. PMID:3745501

  6. Approaching human language with complex networks

    NASA Astrophysics Data System (ADS)

    Cong, Jin; Liu, Haitao

    2014-12-01

    The interest in modeling and analyzing human language with complex networks is on the rise in recent years and a considerable body of research in this area has already been accumulated. We survey three major lines of linguistic research from the complex network approach: 1) characterization of human language as a multi-level system with complex network analysis; 2) linguistic typological research with the application of linguistic networks and their quantitative measures; and 3) relationships between the system-level complexity of human language (determined by the topology of linguistic networks) and microscopic linguistic (e.g., syntactic) features (as the traditional concern of linguistics). We show that the models and quantitative tools of complex networks, when exploited properly, can constitute an operational methodology for linguistic inquiry, which contributes to the understanding of human language and the development of linguistics. We conclude our review with suggestions for future linguistic research from the complex network approach: 1) relationships between the system-level complexity of human language and microscopic linguistic features; 2) expansion of research scope from the global properties to other levels of granularity of linguistic networks; and 3) combination of linguistic network analysis with other quantitative studies of language (such as quantitative linguistics).

  7. Approaching human language with complex networks.

    PubMed

    Cong, Jin; Liu, Haitao

    2014-12-01

    The interest in modeling and analyzing human language with complex networks is on the rise in recent years and a considerable body of research in this area has already been accumulated. We survey three major lines of linguistic research from the complex network approach: 1) characterization of human language as a multi-level system with complex network analysis; 2) linguistic typological research with the application of linguistic networks and their quantitative measures; and 3) relationships between the system-level complexity of human language (determined by the topology of linguistic networks) and microscopic linguistic (e.g., syntactic) features (as the traditional concern of linguistics). We show that the models and quantitative tools of complex networks, when exploited properly, can constitute an operational methodology for linguistic inquiry, which contributes to the understanding of human language and the development of linguistics. We conclude our review with suggestions for future linguistic research from the complex network approach: 1) relationships between the system-level complexity of human language and microscopic linguistic features; 2) expansion of research scope from the global properties to other levels of granularity of linguistic networks; and 3) combination of linguistic network analysis with other quantitative studies of language (such as quantitative linguistics).

  8. Approaching human language with complex networks.

    PubMed

    Cong, Jin; Liu, Haitao

    2014-12-01

    The interest in modeling and analyzing human language with complex networks is on the rise in recent years and a considerable body of research in this area has already been accumulated. We survey three major lines of linguistic research from the complex network approach: 1) characterization of human language as a multi-level system with complex network analysis; 2) linguistic typological research with the application of linguistic networks and their quantitative measures; and 3) relationships between the system-level complexity of human language (determined by the topology of linguistic networks) and microscopic linguistic (e.g., syntactic) features (as the traditional concern of linguistics). We show that the models and quantitative tools of complex networks, when exploited properly, can constitute an operational methodology for linguistic inquiry, which contributes to the understanding of human language and the development of linguistics. We conclude our review with suggestions for future linguistic research from the complex network approach: 1) relationships between the system-level complexity of human language and microscopic linguistic features; 2) expansion of research scope from the global properties to other levels of granularity of linguistic networks; and 3) combination of linguistic network analysis with other quantitative studies of language (such as quantitative linguistics). PMID:24794524

  9. Common cold outbreaks: A network theory approach

    NASA Astrophysics Data System (ADS)

    Vishkaie, Faranak Rajabi; Bakouie, Fatemeh; Gharibzadeh, Shahriar

    2014-11-01

    In this study, at first we evaluated the network structure in social encounters by which respiratory diseases can spread. We considered common-cold and recorded a sample of human population and actual encounters between them. Our results show that the database structure presents a great value of clustering. In the second step, we evaluated dynamics of disease spread with SIR model by assigning a function to each node of the structural network. The rate of disease spread in networks was observed to be inversely correlated with characteristic path length. Therefore, the shortcuts have a significant role in increasing spread rate. We conclude that the dynamics of social encounters' network stands between the random and the lattice in network spectrum. Although in this study we considered the period of common-cold disease for network dynamics, it seems that similar approaches may be useful for other airborne diseases such as SARS.

  10. A new approach to artificial neural networks.

    PubMed

    Baptista Filho, B D; Cabral, E L; Soares, A J

    1998-01-01

    A novel approach to artificial neural networks is presented. The philosophy of this approach is based on two aspects: the design of task-specific networks, and a new neuron model with multiple synapses. The synapses' connective strengths are modified through selective and cumulative processes conducted by axo-axonic connections from a feedforward circuit. This new concept was applied to the position control of a planar two-link manipulator exhibiting excellent results on learning capability and generalization when compared with a conventional feedforward network. In the present paper, the example shows only a network developed from a neuronal reflexive circuit with some useful artifices, nevertheless without the intention of covering all possibilities devised.

  11. Queuing network approach for building evacuation planning

    NASA Astrophysics Data System (ADS)

    Ishak, Nurhanis; Khalid, Ruzelan; Baten, Md. Azizul; Nawawi, Mohd. Kamal Mohd.

    2014-12-01

    The complex behavior of pedestrians in a limited space layout can explicitly be modeled using an M/G/C/C state dependent queuing network. This paper implements the approach to study pedestrian flows through various corridors in a topological network. The best arrival rates and their impacts to the corridors' performances in terms of the throughput, blocking probability, expected number of occupants in the system and expected travel time were first measured using the M/G/C/C analytical model. These best arrival rates were then fed to its Network Flow Programming model to find the best arrival rates to source corridors and routes optimizing the network's total throughput. The analytical results were then validated using a simulation model. Various results of this study can be used to support the current Standard Operating Procedures (SOP) to efficiently and safely evacuate people in emergency cases.

  12. A network approach to evaluate ecosystem vulnerability

    NASA Astrophysics Data System (ADS)

    Goodwell, Allison; Kumar, Praveen

    2016-04-01

    Ecohydrologic systems exhibit shifts in behavior due to natural or human induced perturbations or stresses. These shifts result from changes in dependencies between many interacting components. A framework that defines a system based on these shifting interactions is needed to holistically evaluate properties such as resilience, vulnerability, or health that cannot be reached through the isolated study of component behaviors. This study uses a network approach in which ecohydrologic time-series data are nodes, and information theoretic measures that capture various aspects of time dependencies are links. It has been shown that an information decomposition approach can be used to determine the relative redundant (shared by multiple source nodes to a target), synergistic (arising only from the knowledge of multiple source nodes), or unique (only provided by an individual source node) information within a given detected link. We construct networks from flux tower and ecohydrologic model output nodes and evaluate how these evolve in terms of connectivity, dominant time scales of interactions, link uniqueness, and link stability over time windows ranging from several hours to several weeks as ecosystems respond to shifting environmental conditions. We associate these network properties with simulated and observed vegetation responses, and show that a network framework can be used to detect critical interactions that dictate ecosystem vulnerabilities to extremes.

  13. Ensemble approach to the analysis of weighted networks.

    PubMed

    Ahnert, S E; Garlaschelli, D; Fink, T M A; Caldarelli, G

    2007-07-01

    We present an approach to the analysis of weighted networks, by providing a straightforward generalization of any network measure defined on unweighted networks, such as the average degree of the nearest neighbors, the clustering coefficient, the "betweenness," the distance between two nodes, and the diameter of a network. All these measures are well established for unweighted networks but have hitherto proven difficult to define for weighted networks. Our approach is based on the translation of a weighted network into an ensemble of edges. Further introducing this approach we demonstrate its advantages by applying the clustering coefficient constructed in this way to two real-world weighted networks.

  14. A Network Approach to Rare Disease Modeling

    NASA Astrophysics Data System (ADS)

    Ghiassian, Susan; Rabello, Sabrina; Sharma, Amitabh; Wiest, Olaf; Barabasi, Albert-Laszlo

    2011-03-01

    Network approaches have been widely used to better understand different areas of natural and social sciences. Network Science had a particularly great impact on the study of biological systems. In this project, using biological networks, candidate drugs as a potential treatment of rare diseases were identified. Developing new drugs for more than 2000 rare diseases (as defined by ORPHANET) is too expensive and beyond expectation. Disease proteins do not function in isolation but in cooperation with other interacting proteins. Research on FDA approved drugs have shown that most of the drugs do not target the disease protein but a protein which is 2 or 3 steps away from the disease protein in the Protein-Protein Interaction (PPI) network. We identified the already known drug targets in the disease gene's PPI subnetwork (up to the 3rd neighborhood) and among them those in the same sub cellular compartment and higher coexpression coefficient with the disease gene are expected to be stronger candidates. Out of 2177 rare diseases, 1092 were found not to have any drug target. Using the above method, we have found the strongest candidates among the rest in order to further experimental validations.

  15. Leveraging modeling approaches: reaction networks and rules.

    PubMed

    Blinov, Michael L; Moraru, Ion I

    2012-01-01

    We have witnessed an explosive growth in research involving mathematical models and computer simulations of intracellular molecular interactions, ranging from metabolic pathways to signaling and gene regulatory networks. Many software tools have been developed to aid in the study of such biological systems, some of which have a wealth of features for model building and visualization, and powerful capabilities for simulation and data analysis. Novel high-resolution and/or high-throughput experimental techniques have led to an abundance of qualitative and quantitative data related to the spatiotemporal distribution of molecules and complexes, their interactions kinetics, and functional modifications. Based on this information, computational biology researchers are attempting to build larger and more detailed models. However, this has proved to be a major challenge. Traditionally, modeling tools require the explicit specification of all molecular species and interactions in a model, which can quickly become a major limitation in the case of complex networks - the number of ways biomolecules can combine to form multimolecular complexes can be combinatorially large. Recently, a new breed of software tools has been created to address the problems faced when building models marked by combinatorial complexity. These have a different approach for model specification, using reaction rules and species patterns. Here we compare the traditional modeling approach with the new rule-based methods. We make a case for combining the capabilities of conventional simulation software with the unique features and flexibility of a rule-based approach in a single software platform for building models of molecular interaction networks.

  16. Differential Correlates of Multi-Type Maltreatment among Urban Youth

    ERIC Educational Resources Information Center

    Arata, Catalina M.; Langhinrichsen-Rohling, Jennifer; Bowers, David; O'Brien, Natalie

    2007-01-01

    Objective: The aim of this study was to examine the differential effects of multi-types of maltreatment in an adolescent sample. Different combinations of maltreatment (emotional, sexual, physical, neglect) were examined in relation to both negative affect and externalizing symptoms in male and female youth. Method: One thousand four hundred…

  17. An approach for modeling vulnerability of the network of networks

    NASA Astrophysics Data System (ADS)

    Zhang, Jianhua; Song, Bo; Zhang, Zhaojun; Liu, Haikuan

    2014-10-01

    In this paper, a framework is given to model the network of networks and to investigate the vulnerability of the network of networks subjected to failures. Because there are several redundant systems in infrastructure systems, the dependent intensity between two networks is introduced and adopted to discuss the vulnerability of the interdependent infrastructure networks subjected to failures. Shanghai electrified rail transit network is used to illustrate the feasibility and effectiveness of the proposed framework. Because the rail network is dependent on the power grid and communication network, the corresponding power grid and communication network are also included in this system. Meanwhile the failures to the power grid and communication network are utilized to investigate the vulnerability of the rail network. The results show that the rail network strongly depends on the power grid and weakly depends on the communication network, and the transport functionality loss of the rail network increases with the increase of dependent intensity. Meanwhile the highest betweenness node-based attack to the power grid and the largest degree node-based attack to the communication network can result in the most functionality losses to the rail network. Moreover, the functionality loss of the rail network has the smallest value when the tolerance parameter of the power grid equals 0.75 and the critical nodes of the power grid and communication network can be obtained by simulations.

  18. EEG source localization: a neural network approach.

    PubMed

    Sclabassi, R J; Sonmez, M; Sun, M

    2001-07-01

    Functional activity in the brain is associated with the generation of currents and resultant voltages which may be observed on the scalp as the electroencephelogram. The current sources may be modeled as dipoles. The properties of the current dipole sources may be studied by solving either the forward or inverse problems. The forward problem utilizes a volume conductor model for the head, in which the potentials on the conductor surface are computed based on an assumed current dipole at an arbitrary location, orientation, and strength. In the inverse problem, on the other hand, a current dipole, or a group of dipoles, is identified based on the observed EEG. Both the forward and inverse problems are typically solved by numerical procedures, such as a boundary element method and an optimization algorithm. These approaches are highly time-consuming and unsuitable for the rapid evaluation of brain function. In this paper we present a different approach to these problems based on machine learning. We solve both problems using artificial neural networks which are trained off-line using back-propagation techniques to learn the complex source-potential relationships of head volume conduction. Once trained, these networks are able to generalize their knowledge to localize functional activity within the brain in a computationally efficient manner.

  19. A Complex Network Approach to Stylometry.

    PubMed

    Amancio, Diego Raphael

    2015-01-01

    Statistical methods have been widely employed to study the fundamental properties of language. In recent years, methods from complex and dynamical systems proved useful to create several language models. Despite the large amount of studies devoted to represent texts with physical models, only a limited number of studies have shown how the properties of the underlying physical systems can be employed to improve the performance of natural language processing tasks. In this paper, I address this problem by devising complex networks methods that are able to improve the performance of current statistical methods. Using a fuzzy classification strategy, I show that the topological properties extracted from texts complement the traditional textual description. In several cases, the performance obtained with hybrid approaches outperformed the results obtained when only traditional or networked methods were used. Because the proposed model is generic, the framework devised here could be straightforwardly used to study similar textual applications where the topology plays a pivotal role in the description of the interacting agents. PMID:26313921

  20. Network approaches for expert decisions in sports.

    PubMed

    Glöckner, Andreas; Heinen, Thomas; Johnson, Joseph G; Raab, Markus

    2012-04-01

    This paper focuses on a model comparison to explain choices based on gaze behavior via simulation procedures. We tested two classes of models, a parallel constraint satisfaction (PCS) artificial neuronal network model and an accumulator model in a handball decision-making task from a lab experiment. Both models predict action in an option-generation task in which options can be chosen from the perspective of a playmaker in handball (i.e., passing to another player or shooting at the goal). Model simulations are based on a dataset of generated options together with gaze behavior measurements from 74 expert handball players for 22 pieces of video footage. We implemented both classes of models as deterministic vs. probabilistic models including and excluding fitted parameters. Results indicated that both classes of models can fit and predict participants' initially generated options based on gaze behavior data, and that overall, the classes of models performed about equally well. Early fixations were thereby particularly predictive for choices. We conclude that the analyses of complex environments via network approaches can be successfully applied to the field of experts' decision making in sports and provide perspectives for further theoretical developments.

  1. A Complex Network Approach to Stylometry

    PubMed Central

    Amancio, Diego Raphael

    2015-01-01

    Statistical methods have been widely employed to study the fundamental properties of language. In recent years, methods from complex and dynamical systems proved useful to create several language models. Despite the large amount of studies devoted to represent texts with physical models, only a limited number of studies have shown how the properties of the underlying physical systems can be employed to improve the performance of natural language processing tasks. In this paper, I address this problem by devising complex networks methods that are able to improve the performance of current statistical methods. Using a fuzzy classification strategy, I show that the topological properties extracted from texts complement the traditional textual description. In several cases, the performance obtained with hybrid approaches outperformed the results obtained when only traditional or networked methods were used. Because the proposed model is generic, the framework devised here could be straightforwardly used to study similar textual applications where the topology plays a pivotal role in the description of the interacting agents. PMID:26313921

  2. Clustering-led complex brain networks approach.

    PubMed

    Liu, Dazhong; Zhong, Ning

    2014-01-01

    This paper reviewed the meaning of the statistic index and the properties of the complex network models and their physiological explanation. By analyzing existing problems and construction strategies, this paper attempted to construct complex brain networks from a different point of view: that of clustering first and constructing the brain network second. A clustering-guided (or led) construction strategy towards complex brain networks was proposed. The research focused on the discussion of the task-induced brain network. To discover different networks in a single run, a combined-clusters method was applied. Afterwards, a complex local brain network was formed with a complex network method on voxels. In a real test dataset, it was found that the network had small-world characteristics and had no significant scale-free properties. Meanwhile, some key bridge nodes and their characteristics were identified in the local network by calculating the betweenness centrality.

  3. The NASA Science Internet: An integrated approach to networking

    NASA Technical Reports Server (NTRS)

    Rounds, Fred

    1991-01-01

    An integrated approach to building a networking infrastructure is an absolute necessity for meeting the multidisciplinary science networking requirements of the Office of Space Science and Applications (OSSA) science community. These networking requirements include communication connectivity between computational resources, databases, and library systems, as well as to other scientists and researchers around the world. A consolidated networking approach allows strategic use of the existing science networking within the Federal government, and it provides networking capability that takes into consideration national and international trends towards multivendor and multiprotocol service. It also offers a practical vehicle for optimizing costs and maximizing performance. Finally, and perhaps most important to the development of high speed computing is that an integrated network constitutes a focus for phasing to the National Research and Education Network (NREN). The NASA Science Internet (NSI) program, established in mid 1988, is structured to provide just such an integrated network. A description of the NSI is presented.

  4. A Sociospatial Approach to Understanding Terrorist Networks

    SciTech Connect

    Medina, Richard M; Hepner, George F.

    2011-01-01

    Terrorist networks operate in hybrid space where activities in social and geographic spaces are necessary for logistics and security. The Islamist terrorist network is analyzed as a sociospatial system using social network analysis, Geographic Information Science (GISc), and novel techniques designed for hybrid space analyses. This research focuses on identifying distance and sociospatial dependencies within the terrorist network. A methodology for analyzing sociospatial systems is developed and results lead to a greater understanding of terrorist network structures and activities. Distance and sociospatial dependencies are shown to exist for the Islamist terrorist network structure. These findings are discordant with recent literature that focuses on terrorist network tendencies toward decentralization in the information age. In this research, the Islamist terrorist network is theorized to use multiple structures of hierarchical and decentralized organization for effectiveness, efficiency, and resilience. Implications for counterterrorism policy and strategies are given.

  5. Networking Evaluation: A Creative Approach to Assessment.

    ERIC Educational Resources Information Center

    Cooney, Margaret H.

    This paper describes networking evaluation, an alternative to traditional evaluation, in which students work cooperatively in small groups to solve specific problems and are evaluated collectively by their teacher. Steps in the networking evaluation model are: (1) explaining the networking concept to students and preparing them for the evaluation;…

  6. Making Connections: A Network Approach to University Disaster Preparedness

    ERIC Educational Resources Information Center

    Stein, Catherine H.; Vickio, Craig J.; Fogo, Wendy R.; Abraham, Kristen M.

    2007-01-01

    A network approach to disaster preparedness in university settings is described. Basic network concepts relevant for disaster preparedness and methods for analyzing network data without complex mathematics are presented. A case study of campus mental health and academic units at a midwestern university is presented to illustrate the practical…

  7. Structural factoring approach for analyzing stochastic networks

    NASA Technical Reports Server (NTRS)

    Hayhurst, Kelly J.; Shier, Douglas R.

    1991-01-01

    The problem of finding the distribution of the shortest path length through a stochastic network is investigated. A general algorithm for determining the exact distribution of the shortest path length is developed based on the concept of conditional factoring, in which a directed, stochastic network is decomposed into an equivalent set of smaller, generally less complex subnetworks. Several network constructs are identified and exploited to reduce significantly the computational effort required to solve a network problem relative to complete enumeration. This algorithm can be applied to two important classes of stochastic path problems: determining the critical path distribution for acyclic networks and the exact two-terminal reliability for probabilistic networks. Computational experience with the algorithm was encouraging and allowed the exact solution of networks that have been previously analyzed only by approximation techniques.

  8. Implementing the Fussy Baby Network[R] Approach

    ERIC Educational Resources Information Center

    Gilkerson, Linda; Hofherr, Jennifer; Heffron, Mary Claire; Sims, Jennifer Murphy; Jalowiec, Barbara; Bromberg, Stacey R.; Paul, Jennifer J.

    2012-01-01

    Erikson Institute Fussy Baby Network[R] (FBN) developed an approach to engaging parents around their urgent concerns about their baby's crying, sleeping, or feeding in a way which builds their longer-term capacities as parents. This approach, called the FAN, is now in place in new Fussy Baby Network programs around the country and is being infused…

  9. A neural network approach to burst detection.

    PubMed

    Mounce, S R; Day, A J; Wood, A S; Khan, A; Widdop, P D; Machell, J

    2002-01-01

    This paper describes how hydraulic and water quality data from a distribution network may be used to provide a more efficient leakage management capability for the water industry. The research presented concerns the application of artificial neural networks to the issue of detection and location of leakage in treated water distribution systems. An architecture for an Artificial Neural Network (ANN) based system is outlined. The neural network uses time series data produced by sensors to directly construct an empirical model for predication and classification of leaks. Results are presented using data from an experimental site in Yorkshire Water's Keighley distribution system. PMID:11936639

  10. Considerations for Software Defined Networking (SDN): Approaches and use cases

    NASA Astrophysics Data System (ADS)

    Bakshi, K.

    Software Defined Networking (SDN) is an evolutionary approach to network design and functionality based on the ability to programmatically modify the behavior of network devices. SDN uses user-customizable and configurable software that's independent of hardware to enable networked systems to expand data flow control. SDN is in large part about understanding and managing a network as a unified abstraction. It will make networks more flexible, dynamic, and cost-efficient, while greatly simplifying operational complexity. And this advanced solution provides several benefits including network and service customizability, configurability, improved operations, and increased performance. There are several approaches to SDN and its practical implementation. Among them, two have risen to prominence with differences in pedigree and implementation. This paper's main focus will be to define, review, and evaluate salient approaches and use cases of the OpenFlow and Virtual Network Overlay approaches to SDN. OpenFlow is a communication protocol that gives access to the forwarding plane of a network's switches and routers. The Virtual Network Overlay relies on a completely virtualized network infrastructure and services to abstract the underlying physical network, which allows the overlay to be mobile to other physical networks. This is an important requirement for cloud computing, where applications and associated network services are migrated to cloud service providers and remote data centers on the fly as resource demands dictate. The paper will discuss how and where SDN can be applied and implemented, including research and academia, virtual multitenant data center, and cloud computing applications. Specific attention will be given to the cloud computing use case, where automated provisioning and programmable overlay for scalable multi-tenancy is leveraged via the SDN approach.

  11. Fault detection and diagnosis using neural network approaches

    NASA Technical Reports Server (NTRS)

    Kramer, Mark A.

    1992-01-01

    Neural networks can be used to detect and identify abnormalities in real-time process data. Two basic approaches can be used, the first based on training networks using data representing both normal and abnormal modes of process behavior, and the second based on statistical characterization of the normal mode only. Given data representative of process faults, radial basis function networks can effectively identify failures. This approach is often limited by the lack of fault data, but can be facilitated by process simulation. The second approach employs elliptical and radial basis function neural networks and other models to learn the statistical distributions of process observables under normal conditions. Analytical models of failure modes can then be applied in combination with the neural network models to identify faults. Special methods can be applied to compensate for sensor failures, to produce real-time estimation of missing or failed sensors based on the correlations codified in the neural network.

  12. Control of tree water networks: A geometric programming approach

    NASA Astrophysics Data System (ADS)

    Sela Perelman, L.; Amin, S.

    2015-10-01

    This paper presents a modeling and operation approach for tree water supply systems. The network control problem is approximated as a geometric programming (GP) problem. The original nonlinear nonconvex network control problem is transformed into a convex optimization problem. The optimization model can be efficiently solved to optimality using state-of-the-art solvers. Two control schemes are presented: (1) operation of network actuators (pumps and valves) and (2) controlled demand shedding allocation between network consumers with limited resources. The dual of the network control problem is formulated and is used to perform sensitivity analysis with respect to hydraulic constraints. The approach is demonstrated on a small branched-topology network and later extended to a medium-size irrigation network. The results demonstrate an intrinsic trade-off between energy costs and demand shedding policy, providing an efficient decision support tool for active management of water systems.

  13. A network dynamics approach to chemical reaction networks

    NASA Astrophysics Data System (ADS)

    van der Schaft, A. J.; Rao, S.; Jayawardhana, B.

    2016-04-01

    A treatment of a chemical reaction network theory is given from the perspective of nonlinear network dynamics, in particular of consensus dynamics. By starting from the complex-balanced assumption, the reaction dynamics governed by mass action kinetics can be rewritten into a form which allows for a very simple derivation of a number of key results in the chemical reaction network theory, and which directly relates to the thermodynamics and port-Hamiltonian formulation of the system. Central in this formulation is the definition of a balanced Laplacian matrix on the graph of chemical complexes together with a resulting fundamental inequality. This immediately leads to the characterisation of the set of equilibria and their stability. Furthermore, the assumption of complex balancedness is revisited from the point of view of Kirchhoff's matrix tree theorem. Both the form of the dynamics and the deduced behaviour are very similar to consensus dynamics, and provide additional perspectives to the latter. Finally, using the classical idea of extending the graph of chemical complexes by a 'zero' complex, a complete steady-state stability analysis of mass action kinetics reaction networks with constant inflows and mass action kinetics outflows is given, and a unified framework is provided for structure-preserving model reduction of this important class of open reaction networks.

  14. Networks of informal caring: a mixed-methods approach.

    PubMed

    Rutherford, Alasdair; Bowes, Alison

    2014-12-01

    Care for older people is a complex phenomenon, and is an area of pressing policy concern. Bringing together literature on care from social gerontology and economics, we report the findings of a mixed-methods project exploring networks of informal caring. Using quantitative data from the British Household Panel Survey (official survey of British households), together with qualitative interviews with older people and informal carers, we describe differences in formal care networks, and the factors and decision-making processes that have contributed to the formation of the networks. A network approach to care permits both quantitative and qualitative study, and the approach can be used to explore many important questions.

  15. A Layered Approach To Pacs Network Architecture

    NASA Astrophysics Data System (ADS)

    Hegde, Shankar S.; Prewitt, Judith M.

    1984-08-01

    Although the functions performed by the different nodes on the PACS network are many, it is possible to formulate a minimum set of service primitives such that the application software residing at the nodes can utilize those primitives to perform the functions. These primitives define the framework for the communication interface. The question of how these primitives fit into the concept of a layered network architecture is explored in this paper. The OSI model as applicable to the PACS network is described, the areas that need standardization are briefly mentioned, and the ongoing standardization efforts are addressed from the OSI perspective.

  16. Scalable Approaches to Control Network Dynamics: Prospects for City Networks

    NASA Astrophysics Data System (ADS)

    Motter, Adilson E.; Gray, Kimberly A.

    2014-07-01

    A city is a complex, emergent system and as such can be conveniently represented as a network of interacting components. A fundamental aspect of networks is that the systemic properties can depend as much on the interactions as they depend on the properties of the individual components themselves. Another fundamental aspect is that changes to one component can affect other components, in a process that may cause the entire or a substantial part of the system to change behavior. Over the past 2 decades, much research has been done on the modeling of large and complex networks involved in communication and transportation, disease propagation, and supply chains, as well as emergent phenomena, robustness and optimization in such systems...

  17. A Sensible Approach to Wireless Networking.

    ERIC Educational Resources Information Center

    Ahmed, S. Faruq

    2002-01-01

    Discusses radio frequency (R.F.) wireless technology, including industry standards, range (coverage) and throughput (data rate), wireless compared to wired networks, and considerations before embarking on a large-scale wireless project. (EV)

  18. Epidemics in networks: a master equation approach

    NASA Astrophysics Data System (ADS)

    Cotacallapa, M.; Hase, M. O.

    2016-02-01

    A problem closely related to epidemiology, where a subgraph of ‘infected’ links is defined inside a larger network, is investigated. This subgraph is generated from the underlying network by a random variable, which decides whether a link is able to propagate a disease/information. The relaxation timescale of this random variable is examined in both annealed and quenched limits, and the effectiveness of propagation of disease/information is analyzed. The dynamics of the model is governed by a master equation and two types of underlying network are considered: one is scale-free and the other has exponential degree distribution. We have shown that the relaxation timescale of the contagion variable has a major influence on the topology of the subgraph of infected links, which determines the efficiency of spreading of disease/information over the network.

  19. A Networks Approach to Modeling Enzymatic Reactions.

    PubMed

    Imhof, P

    2016-01-01

    Modeling enzymatic reactions is a demanding task due to the complexity of the system, the many degrees of freedom involved and the complex, chemical, and conformational transitions associated with the reaction. Consequently, enzymatic reactions are not determined by precisely one reaction pathway. Hence, it is beneficial to obtain a comprehensive picture of possible reaction paths and competing mechanisms. By combining individually generated intermediate states and chemical transition steps a network of such pathways can be constructed. Transition networks are a discretized representation of a potential energy landscape consisting of a multitude of reaction pathways connecting the end states of the reaction. The graph structure of the network allows an easy identification of the energetically most favorable pathways as well as a number of alternative routes.

  20. Multisensor neural network approach to mine detection

    NASA Astrophysics Data System (ADS)

    Iler, Amber L.; Marble, Jay A.; Rauss, Patrick J.

    2001-10-01

    A neural network is applied to data collected by the close-in detector for the Mine Hunter Killer (MHK) project with promising results. We use the ground penetrating radar (GPR) and metal detector to create three channels (two from the GPR) and train a basic, two layer (single hidden layer), feed-forward neural network. By experimenting with the number of hidden nodes and training goals, we were able to surpass the performance of the single sensors when we fused the three channels via our neural network and applied the trained net to different data. The fused sensors exceeded the best single sensor performance above 95 percent detection by providing a lower, but still high, false alarm rate. And though our three channel neural net worked best, we saw an increase in performance with fewer than three channels, as well.

  1. Challenges to a Learning Approach through a Global Network.

    ERIC Educational Resources Information Center

    Lee, In-Sook

    Computer networking is a new educational approach that can well serve the educational needs in a society of dynamic and constant changes. This paper examines effective ways of establishing a computer network-based learning system in the Korean educational system. The Korean Educational Development Institute (KEDI) conducted a one-year research…

  2. A Gaussian graphical model approach to climate networks

    NASA Astrophysics Data System (ADS)

    Zerenner, Tanja; Friederichs, Petra; Lehnertz, Klaus; Hense, Andreas

    2014-06-01

    Distinguishing between direct and indirect connections is essential when interpreting network structures in terms of dynamical interactions and stability. When constructing networks from climate data the nodes are usually defined on a spatial grid. The edges are usually derived from a bivariate dependency measure, such as Pearson correlation coefficients or mutual information. Thus, the edges indistinguishably represent direct and indirect dependencies. Interpreting climate data fields as realizations of Gaussian Random Fields (GRFs), we have constructed networks according to the Gaussian Graphical Model (GGM) approach. In contrast to the widely used method, the edges of GGM networks are based on partial correlations denoting direct dependencies. Furthermore, GRFs can be represented not only on points in space, but also by expansion coefficients of orthogonal basis functions, such as spherical harmonics. This leads to a modified definition of network nodes and edges in spectral space, which is motivated from an atmospheric dynamics perspective. We construct and analyze networks from climate data in grid point space as well as in spectral space, and derive the edges from both Pearson and partial correlations. Network characteristics, such as mean degree, average shortest path length, and clustering coefficient, reveal that the networks posses an ordered and strongly locally interconnected structure rather than small-world properties. Despite this, the network structures differ strongly depending on the construction method. Straightforward approaches to infer networks from climate data while not regarding any physical processes may contain too strong simplifications to describe the dynamics of the climate system appropriately.

  3. A Gaussian graphical model approach to climate networks

    SciTech Connect

    Zerenner, Tanja; Friederichs, Petra; Hense, Andreas; Lehnertz, Klaus

    2014-06-15

    Distinguishing between direct and indirect connections is essential when interpreting network structures in terms of dynamical interactions and stability. When constructing networks from climate data the nodes are usually defined on a spatial grid. The edges are usually derived from a bivariate dependency measure, such as Pearson correlation coefficients or mutual information. Thus, the edges indistinguishably represent direct and indirect dependencies. Interpreting climate data fields as realizations of Gaussian Random Fields (GRFs), we have constructed networks according to the Gaussian Graphical Model (GGM) approach. In contrast to the widely used method, the edges of GGM networks are based on partial correlations denoting direct dependencies. Furthermore, GRFs can be represented not only on points in space, but also by expansion coefficients of orthogonal basis functions, such as spherical harmonics. This leads to a modified definition of network nodes and edges in spectral space, which is motivated from an atmospheric dynamics perspective. We construct and analyze networks from climate data in grid point space as well as in spectral space, and derive the edges from both Pearson and partial correlations. Network characteristics, such as mean degree, average shortest path length, and clustering coefficient, reveal that the networks posses an ordered and strongly locally interconnected structure rather than small-world properties. Despite this, the network structures differ strongly depending on the construction method. Straightforward approaches to infer networks from climate data while not regarding any physical processes may contain too strong simplifications to describe the dynamics of the climate system appropriately.

  4. Infections on Temporal Networks--A Matrix-Based Approach.

    PubMed

    Koher, Andreas; Lentz, Hartmut H K; Hövel, Philipp; Sokolov, Igor M

    2016-01-01

    We extend the concept of accessibility in temporal networks to model infections with a finite infectious period such as the susceptible-infected-recovered (SIR) model. This approach is entirely based on elementary matrix operations and unifies the disease and network dynamics within one algebraic framework. We demonstrate the potential of this formalism for three examples of networks with high temporal resolution: networks of social contacts, sexual contacts, and livestock-trade. Our investigations provide a new methodological framework that can be used, for instance, to estimate the epidemic threshold, a quantity that determines disease parameters, for which a large-scale outbreak can be expected. PMID:27035128

  5. A neural-network approach to robotic control

    NASA Technical Reports Server (NTRS)

    Graham, D. P. W.; Deleuterio, G. M. T.

    1993-01-01

    An artificial neural-network paradigm for the control of robotic systems is presented. The approach is based on the Cerebellar Model Articulation Controller created by James Albus and incorporates several extensions. First, recognizing the essential structure of multibody equations of motion, two parallel modules are used that directly reflect the dynamical characteristics of multibody systems. Second, the architecture of the proposed network is imbued with a self-organizational capability which improves efficiency and accuracy. Also, the networks can be arranged in hierarchical fashion with each subsequent network providing finer and finer resolution.

  6. Complex network approach to fractional time series

    SciTech Connect

    Manshour, Pouya

    2015-10-15

    In order to extract correlation information inherited in stochastic time series, the visibility graph algorithm has been recently proposed, by which a time series can be mapped onto a complex network. We demonstrate that the visibility algorithm is not an appropriate one to study the correlation aspects of a time series. We then employ the horizontal visibility algorithm, as a much simpler one, to map fractional processes onto complex networks. The degree distributions are shown to have parabolic exponential forms with Hurst dependent fitting parameter. Further, we take into account other topological properties such as maximum eigenvalue of the adjacency matrix and the degree assortativity, and show that such topological quantities can also be used to predict the Hurst exponent, with an exception for anti-persistent fractional Gaussian noises. To solve this problem, we take into account the Spearman correlation coefficient between nodes' degrees and their corresponding data values in the original time series.

  7. ARWAR: A network approach for predicting Adverse Drug Reactions.

    PubMed

    Rahmani, Hossein; Weiss, Gerhard; Méndez-Lucio, Oscar; Bender, Andreas

    2016-01-01

    Predicting novel drug side-effects, or Adverse Drug Reactions (ADRs), plays an important role in the drug discovery process. Existing methods consider mainly the chemical and biological characteristics of each drug individually, thereby neglecting information hidden in the relationships among drugs. Complementary to the existing individual methods, in this paper, we propose a novel network approach for ADR prediction that is called Augmented Random-WAlk with Restarts (ARWAR). ARWAR, first, applies an existing method to build a network of highly related drugs. Then, it augments the original drug network by adding new nodes and new edges to the network and finally, it applies Random Walks with Restarts to predict novel ADRs. Empirical results show that the ARWAR method presented here outperforms the existing network approach by 20% with respect to average Fmeasure. Furthermore, ARWAR is capable of generating novel hypotheses about drugs with respect to novel and biologically meaningful ADR.

  8. A Bayesian Networks approach to Operational Risk

    NASA Astrophysics Data System (ADS)

    Aquaro, V.; Bardoscia, M.; Bellotti, R.; Consiglio, A.; De Carlo, F.; Ferri, G.

    2010-04-01

    A system for Operational Risk management based on the computational paradigm of Bayesian Networks is presented. The algorithm allows the construction of a Bayesian Network targeted for each bank and takes into account in a simple and realistic way the correlations among different processes of the bank. The internal losses are averaged over a variable time horizon, so that the correlations at different times are removed, while the correlations at the same time are kept: the averaged losses are thus suitable to perform the learning of the network topology and parameters; since the main aim is to understand the role of the correlations among the losses, the assessments of domain experts are not used. The algorithm has been validated on synthetic time series. It should be stressed that the proposed algorithm has been thought for the practical implementation in a mid or small sized bank, since it has a small impact on the organizational structure of a bank and requires an investment in human resources which is limited to the computational area.

  9. Neural network approach for differential diagnosis of interstitial lung diseases

    NASA Astrophysics Data System (ADS)

    Asada, Naoki; Doi, Kunio; MacMahon, Heber; Montner, Steven M.; Giger, Maryellen L.; Abe, Chihiro; Wu, Chris Y.

    1990-07-01

    A neural network approach was applied for the differential diagnosis of interstitial lung diseases. The neural network was designed for distinguishing between 9 types of interstitial lung diseases based on 20 items of clinical and radiographic information. A database for training and testing the neural network was created with 10 hypothetical cases for each of the 9 diseases. The performance of the neural network was evaluated by ROC analysis. The optimal parameters for the current neural network were determined by selecting those yielding the highest ROC curves. In this case the neural network consisted of one hidden layer including 6 units and was trained with 200 learning iterations. When the decision performances of the neural network chest radiologists and senior radiology residents were compared the neural network indicated high performance comparable to that of chest radiologists and superior to that of senior radiology residents. Our preliminary results suggested strongly that the neural network approach had potential utility in the computer-aided differential diagnosis of interstitial lung diseases. 1_

  10. Approaches to modeling gene regulatory networks: a gentle introduction.

    PubMed

    Schlitt, Thomas

    2013-01-01

    This chapter is split into two main sections; first, I will present an introduction to gene networks. Second, I will discuss various approaches to gene network modeling which will include some examples for using different data sources. Computational modeling has been used for many different biological systems and many approaches have been developed addressing the different needs posed by the different application fields. The modeling approaches presented here are not limited to gene regulatory networks and occasionally I will present other examples. The material covered here is an update based on several previous publications by Thomas Schlitt and Alvis Brazma (FEBS Lett 579(8),1859-1866, 2005; Philos Trans R Soc Lond B Biol Sci 361(1467), 483-494, 2006; BMC Bioinformatics 8(suppl 6), S9, 2007) that formed the foundation for a lecture on gene regulatory networks at the In Silico Systems Biology workshop series at the European Bioinformatics Institute in Hinxton. PMID:23715978

  11. Electricity distribution networks: Changing regulatory approaches

    NASA Astrophysics Data System (ADS)

    Cambini, Carlo

    2016-09-01

    Increasing the penetration of distributed generation and smart grid technologies requires substantial investments. A study proposes an innovative approach that combines four regulatory tools to provide economic incentives for distribution system operators to facilitate these innovative practices.

  12. A Constructive Neural-Network Approach to Modeling Psychological Development

    ERIC Educational Resources Information Center

    Shultz, Thomas R.

    2012-01-01

    This article reviews a particular computational modeling approach to the study of psychological development--that of constructive neural networks. This approach is applied to a variety of developmental domains and issues, including Piagetian tasks, shift learning, language acquisition, number comparison, habituation of visual attention, concept…

  13. An artificial neural network approach to transformer fault diagnosis

    SciTech Connect

    Zhang, Y.; Ding, X.; Liu, Y.; Griffin, P.J.

    1996-10-01

    This paper presents an artificial neural network (ANN) approach to diagnose and detect faults in oil-filled power transformers based on dissolved gas-in-oil analysis. A two-step ANN method is used to detect faults with or without cellulose involved. Good diagnosis accuracy is obtained with the proposed approach.

  14. Alcohol Expectancy Multiaxial Assessment: A Memory Network-Based Approach

    ERIC Educational Resources Information Center

    Goldman, Mark S.; Darkes, Jack

    2004-01-01

    Despite several decades of activity, alcohol expectancy research has yet to merge measurement approaches with developing memory theory. This article offers an expectancy assessment approach built on a conceptualization of expectancy as an information processing network. The authors began with multidimensional scaling models of expectancy space,…

  15. Reduction of streamflow monitoring networks by a reference point approach

    NASA Astrophysics Data System (ADS)

    Cetinkaya, Cem P.; Harmancioglu, Nilgun B.

    2014-05-01

    Adoption of an integrated approach to water management strongly forces policy and decision-makers to focus on hydrometric monitoring systems as well. Existing hydrometric networks need to be assessed and revised against the requirements on water quantity data to support integrated management. One of the questions that a network assessment study should resolve is whether a current monitoring system can be consolidated in view of the increased expenditures in time, money and effort imposed on the monitoring activity. Within the last decade, governmental monitoring agencies in Turkey have foreseen an audit on all their basin networks in view of prevailing economic pressures. In particular, they question how they can decide whether monitoring should be continued or terminated at a particular site in a network. The presented study is initiated to address this question by examining the applicability of a method called “reference point approach” (RPA) for network assessment and reduction purposes. The main objective of the study is to develop an easily applicable and flexible network reduction methodology, focusing mainly on the assessment of the “performance” of existing streamflow monitoring networks in view of variable operational purposes. The methodology is applied to 13 hydrometric stations in the Gediz Basin, along the Aegean coast of Turkey. The results have shown that the simplicity of the method, in contrast to more complicated computational techniques, is an asset that facilitates the involvement of decision makers in application of the methodology for a more interactive assessment procedure between the monitoring agency and the network designer. The method permits ranking of hydrometric stations with regard to multiple objectives of monitoring and the desired attributes of the basin network. Another distinctive feature of the approach is that it also assists decision making in cases with limited data and metadata. These features of the RPA approach

  16. An overview of data routing approaches for wireless sensor networks.

    PubMed

    Anisi, Mohammad Hossein; Abdullah, Abdul Hanan; Razak, Shukor Abd; Ngadi, Md Asri

    2012-01-01

    Recent years have witnessed a growing interest in deploying large populations of microsensors that collaborate in a distributed manner to gather and process sensory data and deliver them to a sink node through wireless communications systems. Currently, there is a lot of interest in data routing for Wireless Sensor Networks (WSNs) due to their unique challenges compared to conventional routing in wired networks. In WSNs, each data routing approach follows a specific goal (goals) according to the application. Although the general goal of every data routing approach in WSNs is to extend the network lifetime and every approach should be aware of the energy level of the nodes, data routing approaches may focus on one (or some) specific goal(s) depending on the application. Thus, existing approaches can be categorized according to their routing goals. In this paper, the main goals of data routing approaches in sensor networks are described. Then, the best known and most recent data routing approaches in WSNs are classified and studied according to their specific goals. PMID:23443040

  17. Space Network Control Conference on Resource Allocation Concepts and Approaches

    NASA Technical Reports Server (NTRS)

    Moe, Karen L. (Editor)

    1991-01-01

    The results are presented of the Space Network Control (SNC) Conference. In the late 1990s, when the Advanced Tracking and Data Relay Satellite System is operational, Space Network communication services will be supported and controlled by the SNC. The goals of the conference were to survey existing resource allocation concepts and approaches, to identify solutions applicable to the Space Network, and to identify avenues of study in support of the SNC development. The conference was divided into three sessions: (1) Concepts for Space Network Allocation; (2) SNC and User Payload Operations Control Center (POCC) Human-Computer Interface Concepts; and (3) Resource Allocation Tools, Technology, and Algorithms. Key recommendations addressed approaches to achieving higher levels of automation in the scheduling process.

  18. Systems Approaches to Identifying Gene Regulatory Networks in Plants

    PubMed Central

    Long, Terri A.; Brady, Siobhan M.; Benfey, Philip N.

    2009-01-01

    Complex gene regulatory networks are composed of genes, noncoding RNAs, proteins, metabolites, and signaling components. The availability of genome-wide mutagenesis libraries; large-scale transcriptome, proteome, and metabalome data sets; and new high-throughput methods that uncover protein interactions underscores the need for mathematical modeling techniques that better enable scientists to synthesize these large amounts of information and to understand the properties of these biological systems. Systems biology approaches can allow researchers to move beyond a reductionist approach and to both integrate and comprehend the interactions of multiple components within these systems. Descriptive and mathematical models for gene regulatory networks can reveal emergent properties of these plant systems. This review highlights methods that researchers are using to obtain large-scale data sets, and examples of gene regulatory networks modeled with these data. Emergent properties revealed by the use of these network models and perspectives on the future of systems biology are discussed. PMID:18616425

  19. An effective network reduction approach to find the dynamical repertoire of discrete dynamic networks

    NASA Astrophysics Data System (ADS)

    Zañudo, Jorge G. T.; Albert, Réka

    2013-06-01

    Discrete dynamic models are a powerful tool for the understanding and modeling of large biological networks. Although a lot of progress has been made in developing analysis tools for these models, there is still a need to find approaches that can directly relate the network structure to its dynamics. Of special interest is identifying the stable patterns of activity, i.e., the attractors of the system. This is a problem for large networks, because the state space of the system increases exponentially with network size. In this work, we present a novel network reduction approach that is based on finding network motifs that stabilize in a fixed state. Notably, we use a topological criterion to identify these motifs. Specifically, we find certain types of strongly connected components in a suitably expanded representation of the network. To test our method, we apply it to a dynamic network model for a type of cytotoxic T cell cancer and to an ensemble of random Boolean networks of size up to 200. Our results show that our method goes beyond reducing the network and in most cases can actually predict the dynamical repertoire of the nodes (fixed states or oscillations) in the attractors of the system.

  20. A network approach to clinical intervention in neurodegenerative diseases.

    PubMed

    Santiago, Jose A; Potashkin, Judith A

    2014-12-01

    Network biology has become a powerful tool to dissect the molecular mechanisms triggering neurodegeneration. Recent developments in network biology have led to the discovery of disease-causing genes, diagnostic biomarkers, and therapeutic targets for several neurodegenerative diseases including Alzheimer's, Parkinson's, and Huntington's diseases. Network-based approaches have provided the molecular rationale for the relationship among cancer, diabetes, and neurodegenerative diseases, and have uncovered unexpected links between apparently unrelated diseases. Here, we summarize the recent advances in network biology to untangle the molecular underpinnings giving rise to the most prevalent neurodegenerative diseases. We propose that network analysis provides a feasible and practical tool for identifying biologically meaningful biomarkers and potential therapeutic targets for clinical intervention in neurodegenerative diseases. PMID:25455073

  1. A neural network approach to job-shop scheduling.

    PubMed

    Zhou, D N; Cherkassky, V; Baldwin, T R; Olson, D E

    1991-01-01

    A novel analog computational network is presented for solving NP-complete constraint satisfaction problems, i.e. job-shop scheduling. In contrast to most neural approaches to combinatorial optimization based on quadratic energy cost function, the authors propose to use linear cost functions. As a result, the network complexity (number of neurons and the number of resistive interconnections) grows only linearly with problem size, and large-scale implementations become possible. The proposed approach is related to the linear programming network described by D.W. Tank and J.J. Hopfield (1985), which also uses a linear cost function for a simple optimization problem. It is shown how to map a difficult constraint-satisfaction problem onto a simple neural net in which the number of neural processors equals the number of subjobs (operations) and the number of interconnections grows linearly with the total number of operations. Simulations show that the authors' approach produces better solutions than existing neural approaches to job-shop scheduling, i.e. the traveling salesman problem-type Hopfield approach and integer linear programming approach of J.P.S. Foo and Y. Takefuji (1988), in terms of the quality of the solution and the network complexity. PMID:18276371

  2. Contingent approach to Internet-based supply network integration

    NASA Astrophysics Data System (ADS)

    Ho, Jessica; Boughton, Nick; Kehoe, Dennis; Michaelides, Zenon

    2001-10-01

    The Internet is playing an increasingly important role in enhancing the operations of supply networks as many organizations begin to recognize the benefits of Internet- enabled supply arrangements. However, the developments and applications to-date do not extend significantly beyond the dyadic model, whereas the real advantages are to be made with the external and network models to support a coordinated and collaborative based approach. The DOMAIN research group at the University of Liverpool is currently defining new Internet- enabled approaches to enable greater collaboration across supply chains. Different e-business models and tools are focusing on different applications. Using inappropriate e- business models, tools or techniques will bring negative results instead of benefits to all the tiers in the supply network. Thus there are a number of issues to be considered before addressing Internet based supply network integration, in particular an understanding of supply chain management, the emergent business models and evaluating the effects of deploying e-business to the supply network or a particular tier. It is important to utilize a contingent approach to selecting the right e-business model to meet the specific supply chain requirements. This paper addresses the issues and provides a case study on the indirect materials supply networks.

  3. A network approach to determine ecosystem vulnerability to extremes

    NASA Astrophysics Data System (ADS)

    Goodwell, A. E.; Kumar, P.

    2015-12-01

    Ecosystems evolve due to complex interactions over various space and time scales. Process networks, in which nodes are time-series variables and links are information theoretic measures, allow us to analyze a system in terms of unique and redundant time dependencies. It has been shown that process networks composed of measured and modeled ecohydrologic time-series variables exhibit breakdowns in feedbacks during periods of climate extremes such as drought. In this study, we use an information decomposition approach to partition shared information between ecohydrologic time-series nodes into redundant and unique components. Redundant information is information shared between multiple source nodes with a target node, while unique shared information is only attributable to a single source node. In an ecohydrologic network, unique shared information between two nodes is likely to represent a critical ecosystem link, and redundant shared information indicates synchronization or internally induced feedbacks between variables. We form networks using flux tower, weather station, and ecohydrologic model output variables over a range of natural and intensively managed ecosystem types. Methods to compute information transfer components with short datasets are used in order to observe shifts in network behavior that vary with weather conditions and extreme events on hourly to weekly timescales. We compare network properties with satellite derived vegetation indices, and evaluate how links shift in terms of strength, uniqueness, or redundancy as ecosystems respond to environmental conditions. This analysis shows that a network approach can detect critical linkages that dictate ecosystem vulnerability to extreme events.

  4. Development of Novel Random Network Theory-Based Approaches to Identify Network Interactions among Nitrifying Bacteria

    SciTech Connect

    Shi, Cindy

    2015-07-17

    The interactions among different microbial populations in a community could play more important roles in determining ecosystem functioning than species numbers and their abundances, but very little is known about such network interactions at a community level. The goal of this project is to develop novel framework approaches and associated software tools to characterize the network interactions in microbial communities based on high throughput, large scale high-throughput metagenomics data and apply these approaches to understand the impacts of environmental changes (e.g., climate change, contamination) on network interactions among different nitrifying populations and associated microbial communities.

  5. NetworkAnalyst--integrative approaches for protein-protein interaction network analysis and visual exploration.

    PubMed

    Xia, Jianguo; Benner, Maia J; Hancock, Robert E W

    2014-07-01

    Biological network analysis is a powerful approach to gain systems-level understanding of patterns of gene expression in different cell types, disease states and other biological/experimental conditions. Three consecutive steps are required--identification of genes or proteins of interest, network construction and network analysis and visualization. To date, researchers have to learn to use a combination of several tools to accomplish this task. In addition, interactive visualization of large networks has been primarily restricted to locally installed programs. To address these challenges, we have developed NetworkAnalyst, taking advantage of state-of-the-art web technologies, to enable high performance network analysis with rich user experience. NetworkAnalyst integrates all three steps and presents the results via a powerful online network visualization framework. Users can upload gene or protein lists, single or multiple gene expression datasets to perform comprehensive gene annotation and differential expression analysis. Significant genes are mapped to our manually curated protein-protein interaction database to construct relevant networks. The results are presented through standard web browsers for network analysis and interactive exploration. NetworkAnalyst supports common functions for network topology and module analyses. Users can easily search, zoom and highlight nodes or modules, as well as perform functional enrichment analysis on these selections. The networks can be customized with different layouts, colors or node sizes, and exported as PNG, PDF or GraphML files. Comprehensive FAQs, tutorials and context-based tips and instructions are provided. NetworkAnalyst currently supports protein-protein interaction network analysis for human and mouse and is freely available at http://www.networkanalyst.ca. PMID:24861621

  6. Intelligent Resource Management for Local Area Networks: Approach and Evolution

    NASA Technical Reports Server (NTRS)

    Meike, Roger

    1988-01-01

    The Data Management System network is a complex and important part of manned space platforms. Its efficient operation is vital to crew, subsystems and experiments. AI is being considered to aid in the initial design of the network and to augment the management of its operation. The Intelligent Resource Management for Local Area Networks (IRMA-LAN) project is concerned with the application of AI techniques to network configuration and management. A network simulation was constructed employing real time process scheduling for realistic loads, and utilizing the IEEE 802.4 token passing scheme. This simulation is an integral part of the construction of the IRMA-LAN system. From it, a causal model is being constructed for use in prediction and deep reasoning about the system configuration. An AI network design advisor is being added to help in the design of an efficient network. The AI portion of the system is planned to evolve into a dynamic network management aid. The approach, the integrated simulation, project evolution, and some initial results are described.

  7. A mathematical programming approach for sequential clustering of dynamic networks

    NASA Astrophysics Data System (ADS)

    Silva, Jonathan C.; Bennett, Laura; Papageorgiou, Lazaros G.; Tsoka, Sophia

    2016-02-01

    A common analysis performed on dynamic networks is community structure detection, a challenging problem that aims to track the temporal evolution of network modules. An emerging area in this field is evolutionary clustering, where the community structure of a network snapshot is identified by taking into account both its current state as well as previous time points. Based on this concept, we have developed a mixed integer non-linear programming (MINLP) model, SeqMod, that sequentially clusters each snapshot of a dynamic network. The modularity metric is used to determine the quality of community structure of the current snapshot and the historical cost is accounted for by optimising the number of node pairs co-clustered at the previous time point that remain so in the current snapshot partition. Our method is tested on social networks of interactions among high school students, college students and members of the Brazilian Congress. We show that, for an adequate parameter setting, our algorithm detects the classes that these students belong more accurately than partitioning each time step individually or by partitioning the aggregated snapshots. Our method also detects drastic discontinuities in interaction patterns across network snapshots. Finally, we present comparative results with similar community detection methods for time-dependent networks from the literature. Overall, we illustrate the applicability of mathematical programming as a flexible, adaptable and systematic approach for these community detection problems. Contribution to the Topical Issue "Temporal Network Theory and Applications", edited by Petter Holme.

  8. Neural Network Approach To Sensory Fusion

    NASA Astrophysics Data System (ADS)

    Pearson, John C.; Gelfand, Jack J.; Sullivan, W. E.; Peterson, Richard M.; Spence, Clay D.

    1988-08-01

    We present a neural network model for sensory fusion based on the design of the visual/acoustic target localiza-tion system of the barn owl. This system adaptively fuses its separate visual and acoustic representations of object position into a single joint representation used for head orientation. The building block in this system, as in much of the brain, is the neuronal map. Neuronal maps are large arrays of locally interconnected neurons that represent information in a map-like form, that is, parameter values are systematically encoded by the position of neural activation in the array. The computational load is distributed to a hierarchy of maps, and the computation is performed in stages by transforming the representation from map to map via the geometry of the projections between the maps and the local interactions within the maps. For example, azimuthal position is computed from the frequency and binaural phase information encoded in the signals of the acoustic sensors, while elevation is computed in a separate stream using binaural intensity information. These separate streams are merged in their joint projection onto the external nucleus of the inferior colliculus, a two dimensional array of cells which contains a map of acoustic space. This acoustic map, and the visual map of the retina, jointly project onto the optic tectum, creating a fused visual/acoustic representation of position in space that is used for object localization. In this paper we describe our mathematical model of the stage of visual/acoustic fusion in the optic tectum. The model assumes that the acoustic projection from the external nucleus onto the tectum is roughly topographic and one-to-many, while the visual projection from the retina onto the tectum is topographic and one-to-one. A simple process of self-organization alters the strengths of the acoustic connections, effectively forming a focused beam of strong acoustic connections whose inputs are coincident with the visual inputs

  9. Systems psychopharmacology: A network approach to developing novel therapies.

    PubMed

    Gebicke-Haerter, Peter J

    2016-03-22

    The multifactorial origin of most chronic disorders of the brain, including schizophrenia, has been well accepted. Consequently, pharmacotherapy would require multi-targeted strategies. This contrasts to the majority of drug therapies used until now, addressing more or less specifically only one target molecule. Nevertheless, quite some searches for multiple molecular targets specific for mental disorders have been undertaken. For example, genome-wide association studies have been conducted to discover new target genes of disease. Unfortunately, these attempts have not fulfilled the great hopes they have started with. Polypharmacology and network pharmacology approaches of drug treatment endeavor to abandon the one-drug one-target thinking. To this end, most approaches set out to investigate network topologies searching for modules, endowed with "important" nodes, such as "hubs" or "bottlenecks", encompassing features of disease networks, and being useful as tentative targets of drug therapies. This kind of research appears to be very promising. However, blocking or inhibiting "important" targets may easily result in destruction of network integrity. Therefore, it is suggested here to study functions of nodes with lower centrality for more subtle impact on network behavior. Targeting multiple nodes with low impact on network integrity by drugs with multiple activities ("dirty drugs") or by several drugs, simultaneously, avoids to disrupt network integrity and may reset deviant dynamics of disease. Natural products typically display multi target functions and therefore could help to identify useful biological targets. Hence, future efforts should consider to combine drug-target networks with target-disease networks using mathematical (graph theoretical) tools, which could help to develop new therapeutic strategies in long-term psychiatric disorders.

  10. Systems psychopharmacology: A network approach to developing novel therapies

    PubMed Central

    Gebicke-Haerter, Peter J

    2016-01-01

    The multifactorial origin of most chronic disorders of the brain, including schizophrenia, has been well accepted. Consequently, pharmacotherapy would require multi-targeted strategies. This contrasts to the majority of drug therapies used until now, addressing more or less specifically only one target molecule. Nevertheless, quite some searches for multiple molecular targets specific for mental disorders have been undertaken. For example, genome-wide association studies have been conducted to discover new target genes of disease. Unfortunately, these attempts have not fulfilled the great hopes they have started with. Polypharmacology and network pharmacology approaches of drug treatment endeavor to abandon the one-drug one-target thinking. To this end, most approaches set out to investigate network topologies searching for modules, endowed with “important” nodes, such as “hubs” or “bottlenecks”, encompassing features of disease networks, and being useful as tentative targets of drug therapies. This kind of research appears to be very promising. However, blocking or inhibiting “important” targets may easily result in destruction of network integrity. Therefore, it is suggested here to study functions of nodes with lower centrality for more subtle impact on network behavior. Targeting multiple nodes with low impact on network integrity by drugs with multiple activities (“dirty drugs”) or by several drugs, simultaneously, avoids to disrupt network integrity and may reset deviant dynamics of disease. Natural products typically display multi target functions and therefore could help to identify useful biological targets. Hence, future efforts should consider to combine drug-target networks with target-disease networks using mathematical (graph theoretical) tools, which could help to develop new therapeutic strategies in long-term psychiatric disorders. PMID:27014599

  11. Sensitivity of chemical reaction networks: a structural approach. 1. Examples and the carbon metabolic network.

    PubMed

    Mochizuki, Atsushi; Fiedler, Bernold

    2015-02-21

    In biological cells, chemical reaction pathways lead to complex network systems like metabolic networks. One experimental approach to the dynamics of such systems examines their "sensitivity": each enzyme mediating a reaction in the system is increased/decreased or knocked out separately, and the responses in the concentrations of chemicals or their fluxes are observed. In this study, we present a mathematical method, named structural sensitivity analysis, to determine the sensitivity of reaction systems from information on the network alone. We investigate how the sensitivity responses of chemicals in a reaction network depend on the structure of the network, and on the position of the perturbed reaction in the network. We establish and prove some general rules which relate the sensitivity response to the structure of the underlying network. We describe a hierarchical pattern in the flux response which is governed by branchings in the network. We apply our method to several hypothetical and real life chemical reaction networks, including the metabolic network of the Escherichia coli TCA cycle.

  12. Social Network Analysis and Nutritional Behavior: An Integrated Modeling Approach.

    PubMed

    Senior, Alistair M; Lihoreau, Mathieu; Buhl, Jerome; Raubenheimer, David; Simpson, Stephen J

    2016-01-01

    Animals have evolved complex foraging strategies to obtain a nutritionally balanced diet and associated fitness benefits. Recent research combining state-space models of nutritional geometry with agent-based models (ABMs), show how nutrient targeted foraging behavior can also influence animal social interactions, ultimately affecting collective dynamics and group structures. Here we demonstrate how social network analyses can be integrated into such a modeling framework and provide a practical analytical tool to compare experimental results with theory. We illustrate our approach by examining the case of nutritionally mediated dominance hierarchies. First we show how nutritionally explicit ABMs that simulate the emergence of dominance hierarchies can be used to generate social networks. Importantly the structural properties of our simulated networks bear similarities to dominance networks of real animals (where conflicts are not always directly related to nutrition). Finally, we demonstrate how metrics from social network analyses can be used to predict the fitness of agents in these simulated competitive environments. Our results highlight the potential importance of nutritional mechanisms in shaping dominance interactions in a wide range of social and ecological contexts. Nutrition likely influences social interactions in many species, and yet a theoretical framework for exploring these effects is currently lacking. Combining social network analyses with computational models from nutritional ecology may bridge this divide, representing a pragmatic approach for generating theoretical predictions for nutritional experiments.

  13. Social Network Analysis and Nutritional Behavior: An Integrated Modeling Approach

    PubMed Central

    Senior, Alistair M.; Lihoreau, Mathieu; Buhl, Jerome; Raubenheimer, David; Simpson, Stephen J.

    2016-01-01

    Animals have evolved complex foraging strategies to obtain a nutritionally balanced diet and associated fitness benefits. Recent research combining state-space models of nutritional geometry with agent-based models (ABMs), show how nutrient targeted foraging behavior can also influence animal social interactions, ultimately affecting collective dynamics and group structures. Here we demonstrate how social network analyses can be integrated into such a modeling framework and provide a practical analytical tool to compare experimental results with theory. We illustrate our approach by examining the case of nutritionally mediated dominance hierarchies. First we show how nutritionally explicit ABMs that simulate the emergence of dominance hierarchies can be used to generate social networks. Importantly the structural properties of our simulated networks bear similarities to dominance networks of real animals (where conflicts are not always directly related to nutrition). Finally, we demonstrate how metrics from social network analyses can be used to predict the fitness of agents in these simulated competitive environments. Our results highlight the potential importance of nutritional mechanisms in shaping dominance interactions in a wide range of social and ecological contexts. Nutrition likely influences social interactions in many species, and yet a theoretical framework for exploring these effects is currently lacking. Combining social network analyses with computational models from nutritional ecology may bridge this divide, representing a pragmatic approach for generating theoretical predictions for nutritional experiments. PMID:26858671

  14. Social Network Analysis and Nutritional Behavior: An Integrated Modeling Approach.

    PubMed

    Senior, Alistair M; Lihoreau, Mathieu; Buhl, Jerome; Raubenheimer, David; Simpson, Stephen J

    2016-01-01

    Animals have evolved complex foraging strategies to obtain a nutritionally balanced diet and associated fitness benefits. Recent research combining state-space models of nutritional geometry with agent-based models (ABMs), show how nutrient targeted foraging behavior can also influence animal social interactions, ultimately affecting collective dynamics and group structures. Here we demonstrate how social network analyses can be integrated into such a modeling framework and provide a practical analytical tool to compare experimental results with theory. We illustrate our approach by examining the case of nutritionally mediated dominance hierarchies. First we show how nutritionally explicit ABMs that simulate the emergence of dominance hierarchies can be used to generate social networks. Importantly the structural properties of our simulated networks bear similarities to dominance networks of real animals (where conflicts are not always directly related to nutrition). Finally, we demonstrate how metrics from social network analyses can be used to predict the fitness of agents in these simulated competitive environments. Our results highlight the potential importance of nutritional mechanisms in shaping dominance interactions in a wide range of social and ecological contexts. Nutrition likely influences social interactions in many species, and yet a theoretical framework for exploring these effects is currently lacking. Combining social network analyses with computational models from nutritional ecology may bridge this divide, representing a pragmatic approach for generating theoretical predictions for nutritional experiments. PMID:26858671

  15. A Novel Modulation Classification Approach Using Gabor Filter Network

    PubMed Central

    Ghauri, Sajjad Ahmed; Qureshi, Ijaz Mansoor; Cheema, Tanveer Ahmed; Malik, Aqdas Naveed

    2014-01-01

    A Gabor filter network based approach is used for feature extraction and classification of digital modulated signals by adaptively tuning the parameters of Gabor filter network. Modulation classification of digitally modulated signals is done under the influence of additive white Gaussian noise (AWGN). The modulations considered for the classification purpose are PSK 2 to 64, FSK 2 to 64, and QAM 4 to 64. The Gabor filter network uses the network structure of two layers; the first layer which is input layer constitutes the adaptive feature extraction part and the second layer constitutes the signal classification part. The Gabor atom parameters are tuned using Delta rule and updating of weights of Gabor filter using least mean square (LMS) algorithm. The simulation results show that proposed novel modulation classification algorithm has high classification accuracy at low signal to noise ratio (SNR) on AWGN channel. PMID:25126603

  16. Enhanced restoration approach in IP-centric mesh optical networks

    NASA Astrophysics Data System (ADS)

    Liu, Jimin; Zeng, QingJi; Huang, Jun; Xiao, Pengcheng

    2001-10-01

    Optical layer networking and survivability are very important branches of the study of optical communication network. Recent standards proposals have focused on extending MPLS protocols to manage optical network resources. These proposals have concentrated on provisioning optical connections and offering restoration capability in mesh optical networks. Few papers, however, are concentrated on protection issues of backup path. By considering the protection of backup path, survivability of protection scheme will improve. This article presents a novel paradigm enhancing the existing pre-established protection schemes using Multi-Protocol Lambda Switching architecture and demonstrates local restoration and global restoration for backup path with examples. Finally, we discuss the advantages of this approach and present future work.

  17. Evaluating Action Learning: A Critical Realist Complex Network Theory Approach

    ERIC Educational Resources Information Center

    Burgoyne, John G.

    2010-01-01

    This largely theoretical paper will argue the case for the usefulness of applying network and complex adaptive systems theory to an understanding of action learning and the challenge it is evaluating. This approach, it will be argued, is particularly helpful in the context of improving capability in dealing with wicked problems spread around…

  18. The Eigenfactor Metrics™: A Network Approach to Assessing Scholarly Journals

    ERIC Educational Resources Information Center

    West, Jevin D.; Bergstrom, Theodore C.; Bergstrom, Carl T.

    2010-01-01

    Limited time and budgets have created a legitimate need for quantitative measures of scholarly work. The well-known journal impact factor is the leading measure of this sort; here we describe an alternative approach based on the full structure of the scholarly citation network. The Eigenfactor Metrics--Eigenfactor Score and Article Influence…

  19. Real Time Mars Approach Navigation Aided by the Mars Network

    NASA Technical Reports Server (NTRS)

    Ely, Todd A.; Duncan, Courtney; Lightsey, E. Glenn; Mogensen, Andreas

    2006-01-01

    A NASA Mars technology project is described that is building a prototype embedded real time Mars approach navigation capability which can be hosted on the Mars Network's Electra transceiver. The paper motivates the reason for doing real time Mars approach navigation via a set of analyses demonstrating its utility for enabling Mars pin-point landing (< 1-km landing error). The development approach, software design, and test results are discussed. Finally, the way forward towards a flight demonstration on the Mars Science Laboratory is presented.

  20. Real Time Mars Approach Navigation Aided by the Mars Network

    NASA Technical Reports Server (NTRS)

    Ely, Todd A.; Duncan, Courtney; Lightsey, E. Glenn; Mogensen, Andreas

    2006-01-01

    A NASA Mars technology project is described that is building a prototype embedded real time Mars approach navigation capability which can be hosted on the Mars Network's Electra transceiver. The paper motivates the reason for doing real time Mars approach navigation via a set of analyses demonstrating its utility for enabling Mars pin-point landing (less than 1-km landing error). The development approach, software design, and test results are discussed. Finally, the way forward towards a flight demonstration on the Mars Science Laboratory (MSL) is presented.

  1. Event-driven approach of layered multicast to network adaptation in RED-based IP networks

    NASA Astrophysics Data System (ADS)

    Nahm, Kitae; Li, Qing; Kuo, C.-C. J.

    2003-11-01

    In this work, we investigate the congestion control problem for layered video multicast in IP networks of active queue management (AQM) using a simple random early detection (RED) queue model. AQM support from networks improves the visual quality of video streaming but makes network adaptation more di+/-cult for existing layered video multicast proticols that use the event-driven timer-based approach. We perform a simplified analysis on the response of the RED algorithm to burst traffic. The analysis shows that the primary problem lies in the weak correlation between the network feedback and the actual network congestion status when the RED queue is driven by burst traffic. Finally, a design guideline of the layered multicast protocol is proposed to overcome this problem.

  2. Scaling of Reactive Transport in Fracture Networks with Incomplete Mixing: A Metapopulation Network Approach

    NASA Astrophysics Data System (ADS)

    Nicolaides, C.; Cueto-Felgueroso, L.; Juanes, R.

    2011-12-01

    The study of networks as complex systems has revolutionized many disciplines in physics and the social and natural sciences. Recently, the focus of network science has shifted from the analysis of the network topology to the study of the dynamics of processes that take place on them. Here, we adopt a bosonic (metapopulation) network approach to characterize transport and reaction on fracture networks. In a bosonic network, nodes contain populations of particles, which may undertake contact processes within them. This coarse-grained conceptualization permits modeling of nonequilibrium phenomena such as incomplete mixing and kinetic reactions. Particles then move between connected nodes along links, with a rate that reflects the traffic patterns through the network. We generate fracture networks from realistic statistical properties of fracture density, orientation and aperture, and solve potential flow on the network for simple flow configurations. It is well known that the transport of passive particles with complete mixing at the nodes on a fracture network or a scale-free network is anomalous [1,2]. Here, we extend this analysis to account for incomplete mixing at the nodes by considering two types of particles, A and B, which come in contact at the nodes at a rate α (the mixing rate) to produce type-C particles: A+B-> 2C. In the limit of α -> ∞ we recover the instantaneous mixing case. Further, type-C particles decay into stable type-D particles at a rate λ : C→ D. As a result, we capture the interplay among the transport, mixing and reaction time scales on a fracture network. Our analysis demonstrates the strong dependence of global mixing and spreading on incomplete local mixing, and allows us to obtain robust scalings for the spatio-temporal distributions of particles.

  3. Neural network approaches to dynamic collision-free trajectory generation.

    PubMed

    Yang, S X; Meng, M

    2001-01-01

    In this paper, dynamic collision-free trajectory generation in a nonstationary environment is studied using biologically inspired neural network approaches. The proposed neural network is topologically organized, where the dynamics of each neuron is characterized by a shunting equation or an additive equation. The state space of the neural network can be either the Cartesian workspace or the joint space of multi-joint robot manipulators. There are only local lateral connections among neurons. The real-time optimal trajectory is generated through the dynamic activity landscape of the neural network without explicitly searching over the free space nor the collision paths, without explicitly optimizing any global cost functions, without any prior knowledge of the dynamic environment, and without any learning procedures. Therefore the model algorithm is computationally efficient. The stability of the neural network system is guaranteed by the existence of a Lyapunov function candidate. In addition, this model is not very sensitive to the model parameters. Several model variations are presented and the differences are discussed. As examples, the proposed models are applied to generate collision-free trajectories for a mobile robot to solve a maze-type of problem, to avoid concave U-shaped obstacles, to track a moving target and at the same to avoid varying obstacles, and to generate a trajectory for a two-link planar robot with two targets. The effectiveness and efficiency of the proposed approaches are demonstrated through simulation and comparison studies. PMID:18244794

  4. Natural and anthropogenic multi-type hazards for loess territories

    NASA Astrophysics Data System (ADS)

    Mavlyanova, Nadira; Zakirova, Zulfiya

    2013-04-01

    developing of mining manufactures and their waste located in the foothill areas with high seismic risk and where manifested of dangerous geological processes as landslide, collapse, mud stream, rock falls and toxic contamination; 3) development of urbanization with manifestation of difference engineering geological processes in loess soil on the based of constructions in cities (collapse, liquefaction). That example of cascade effects when natural and anthropogenic multi type hazards in loess was the Gissar earthquake (1989) in Tajikistan when the earthquake of rather moderate intensity (M=5.2; H=5-7 km; I=7 - MSK scale) was triggered several landslides and mudslides connected with liquefaction of wetted loess and can cause a large number of human victims. In the pre 20 years steady irrigation of the slope area occurred for cotton field. This moistening has increase and the water content of the soil to wet 24-28%, up to a depth of 20-30 m that increased the vulnerability of this territory. The interactions between different natural hazards, include triggered, especially earthquakes, landslides, collapses, liquefaction in loess soil with taking account of anthropogenic hazard influence was investigate.

  5. Multiple neural network approaches to clinical expert systems

    NASA Astrophysics Data System (ADS)

    Stubbs, Derek F.

    1990-08-01

    We briefly review the concept of computer aided medical diagnosis and more extensively review the the existing literature on neural network applications in the field. Neural networks can function as simple expert systems for diagnosis or prognosis. Using a public database we develop a neural network for the diagnosis of a major presenting symptom while discussing the development process and possible approaches. MEDICAL EXPERTS SYSTEMS COMPUTER AIDED DIAGNOSIS Biomedicine is an incredibly diverse and multidisciplinary field and it is not surprising that neural networks with their many applications are finding more and more applications in the highly non-linear field of biomedicine. I want to concentrate on neural networks as medical expert systems for clinical diagnosis or prognosis. Expert Systems started out as a set of computerized " ifthen" rules. Everything was reduced to boolean logic and the promised land of computer experts was said to be in sight. It never came. Why? First the computer code explodes as the number of " ifs" increases. All the " ifs" have to interact. Second experts are not very good at reducing expertise to language. It turns out that experts recognize patterns and have non-verbal left-brain intuition decision processes. Third learning by example rather than learning by rule is the way natural brains works and making computers work by rule-learning is hideously labor intensive. Neural networks can learn from example. They learn the results

  6. A neural network approach to complete coverage path planning.

    PubMed

    Yang, Simon X; Luo, Chaomin

    2004-02-01

    Complete coverage path planning requires the robot path to cover every part of the workspace, which is an essential issue in cleaning robots and many other robotic applications such as vacuum robots, painter robots, land mine detectors, lawn mowers, automated harvesters, and window cleaners. In this paper, a novel neural network approach is proposed for complete coverage path planning with obstacle avoidance of cleaning robots in nonstationary environments. The dynamics of each neuron in the topologically organized neural network is characterized by a shunting equation derived from Hodgkin and Huxley's (1952) membrane equation. There are only local lateral connections among neurons. The robot path is autonomously generated from the dynamic activity landscape of the neural network and the previous robot location. The proposed model algorithm is computationally simple. Simulation results show that the proposed model is capable of planning collision-free complete coverage robot paths.

  7. An approach to the rationalization of streamflow data collection networks

    NASA Astrophysics Data System (ADS)

    Burn, Donald H.; Goulter, Ian C.

    1991-01-01

    A new procedure for rationalizing a streamflow data collection network is developed. The procedure is a two-phase approach in which in the first phase, a hierarchical clustering technique is used to identify groups of similar gauging stations. In the second phase, a single station from each identified group of gauging stations is selected to be retained in the rationalized network. The station selection phase is an inherently heuristic process that incorporates information about the characteristics of the individual stations in the network. The methodology allows the direct inclusion of user judgement into the station selection process in that it is possible to select more than one station from a group, if conditions warrant. The technique is demonstrated using streamflow gauging stations in and near the Pembina River basin, southern Manitoba, Canada.

  8. Fire detection from hyperspectral data using neural network approach

    NASA Astrophysics Data System (ADS)

    Piscini, Alessandro; Amici, Stefania

    2015-10-01

    This study describes an application of artificial neural networks for the recognition of flaming areas using hyper- spectral remote sensed data. Satellite remote sensing is considered an effective and safe way to monitor active fires for environmental and people safeguarding. Neural networks are an effective and consolidated technique for the classification of satellite images. Moreover, once well trained, they prove to be very fast in the application stage for a rapid response. At flaming temperature, thanks to its low excitation energy (about 4.34 eV), potassium (K) ionize with a unique doublet emission features. This emission features can be detected remotely providing a detection map of active fire which allows in principle to separate flaming from smouldering areas of vegetation even in presence of smoke. For this study a normalised Advanced K Band Difference (AKBD) has been applied to airborne hyper spectral sensor covering a range of 400-970 nm with resolution 2.9 nm. A back propagation neural network was used for the recognition of active fires affecting the hyperspectral image. The network was trained using all channels of sensor as inputs, and the corresponding AKBD indexes as target output. In order to evaluate its generalization capabilities, the neural network was validated on two independent data sets of hyperspectral images, not used during neural network training phase. The validation results for the independent data-sets had an overall accuracy round 100% for both image and a few commission errors (0.1%), therefore demonstrating the feasibility of estimating the presence of active fires using a neural network approach. Although the validation of the neural network classifier had a few commission errors, the producer accuracies were lower due to the presence of omission errors. Image analysis revealed that those false negatives lie in "smoky" portion fire fronts, and due to the low intensity of the signal. The proposed method can be considered

  9. A Spatial Clustering Approach for Stochastic Fracture Network Modelling

    NASA Astrophysics Data System (ADS)

    Seifollahi, S.; Dowd, P. A.; Xu, C.; Fadakar, A. Y.

    2014-07-01

    Fracture network modelling plays an important role in many application areas in which the behaviour of a rock mass is of interest. These areas include mining, civil, petroleum, water and environmental engineering and geothermal systems modelling. The aim is to model the fractured rock to assess fluid flow or the stability of rock blocks. One important step in fracture network modelling is to estimate the number of fractures and the properties of individual fractures such as their size and orientation. Due to the lack of data and the complexity of the problem, there are significant uncertainties associated with fracture network modelling in practice. Our primary interest is the modelling of fracture networks in geothermal systems and, in this paper, we propose a general stochastic approach to fracture network modelling for this application. We focus on using the seismic point cloud detected during the fracture stimulation of a hot dry rock reservoir to create an enhanced geothermal system; these seismic points are the conditioning data in the modelling process. The seismic points can be used to estimate the geographical extent of the reservoir, the amount of fracturing and the detailed geometries of fractures within the reservoir. The objective is to determine a fracture model from the conditioning data by minimizing the sum of the distances of the points from the fitted fracture model. Fractures are represented as line segments connecting two points in two-dimensional applications or as ellipses in three-dimensional (3D) cases. The novelty of our model is twofold: (1) it comprises a comprehensive fracture modification scheme based on simulated annealing and (2) it introduces new spatial approaches, a goodness-of-fit measure for the fitted fracture model, a measure for fracture similarity and a clustering technique for proposing a locally optimal solution for fracture parameters. We use a simulated dataset to demonstrate the application of the proposed approach

  10. A convolutional neural network approach for objective video quality assessment.

    PubMed

    Le Callet, Patrick; Viard-Gaudin, Christian; Barba, Dominique

    2006-09-01

    This paper describes an application of neural networks in the field of objective measurement method designed to automatically assess the perceived quality of digital videos. This challenging issue aims to emulate human judgment and to replace very complex and time consuming subjective quality assessment. Several metrics have been proposed in literature to tackle this issue. They are based on a general framework that combines different stages, each of them addressing complex problems. The ambition of this paper is not to present a global perfect quality metric but rather to focus on an original way to use neural networks in such a framework in the context of reduced reference (RR) quality metric. Especially, we point out the interest of such a tool for combining features and pooling them in order to compute quality scores. The proposed approach solves some problems inherent to objective metrics that should predict subjective quality score obtained using the single stimulus continuous quality evaluation (SSCQE) method. This latter has been adopted by video quality expert group (VQEG) in its recently finalized reduced referenced and no reference (RRNR-TV) test plan. The originality of such approach compared to previous attempts to use neural networks for quality assessment, relies on the use of a convolutional neural network (CNN) that allows a continuous time scoring of the video. Objective features are extracted on a frame-by-frame basis on both the reference and the distorted sequences; they are derived from a perceptual-based representation and integrated along the temporal axis using a time-delay neural network (TDNN). Experiments conducted on different MPEG-2 videos, with bit rates ranging 2-6 Mb/s, show the effectiveness of the proposed approach to get a plausible model of temporal pooling from the human vision system (HVS) point of view. More specifically, a linear correlation criteria, between objective and subjective scoring, up to 0.92 has been obtained on

  11. Complex networks approach to geophysical time series analysis: Detecting paleoclimate transitions via recurrence networks

    NASA Astrophysics Data System (ADS)

    Donner, R. V.; Zou, Y.; Donges, J. F.; Marwan, N.; Kurths, J.

    2009-12-01

    We present a new approach for analysing structural properties of time series from complex systems. Starting from the concept of recurrences in phase space, the recurrence matrix of a time series is interpreted as the adjacency matrix of an associated complex network which links different points in time if the evolution of the considered states is very similar. A critical comparison of these recurrence networks with similar existing techniques is presented, revealing strong conceptual benefits of the new approach which can be considered as a unifying framework for transforming time series into complex networks that also includes other methods as special cases. Based on different model systems, we demonstrate that there are fundamental interrelationships between the topological properties of recurrence networks and the statistical properties of the phase space density of the underlying dynamical system. Hence, the network description yields new quantitative characteristics of the dynamical complexity of a time series, which substantially complement existing measures of recurrence quantification analysis. Finally, we illustrate the potential of our approach for detecting hidden dynamical transitions from geoscientific time series by applying it to different paleoclimate records. In particular, we are able to resolve previously unknown climatic regime shifts in East Africa during the last about 4 million years, which might have had a considerable influence on the evolution of hominids in the area.

  12. An optimal control approach to probabilistic Boolean networks

    NASA Astrophysics Data System (ADS)

    Liu, Qiuli

    2012-12-01

    External control of some genes in a genetic regulatory network is useful for avoiding undesirable states associated with some diseases. For this purpose, a number of stochastic optimal control approaches have been proposed. Probabilistic Boolean networks (PBNs) as powerful tools for modeling gene regulatory systems have attracted considerable attention in systems biology. In this paper, we deal with a problem of optimal intervention in a PBN with the help of the theory of discrete time Markov decision process. Specifically, we first formulate a control model for a PBN as a first passage model for discrete time Markov decision processes and then find, using a value iteration algorithm, optimal effective treatments with the minimal expected first passage time over the space of all possible treatments. In order to demonstrate the feasibility of our approach, an example is also displayed.

  13. Toward a Behavioral Approach to Privacy for Online Social Networks

    NASA Astrophysics Data System (ADS)

    Banks, Lerone D.; Wu, S. Felix

    We examine the correlation between user interactions and self reported information revelation preferences for users of the popular Online Social Network (OSN), Facebook. Our primary goal is to explore the use of indicators of tie strength to inform localized, per-user privacy preferences for users and their ties within OSNs. We examine the limitations of such an approach and discuss future plans to incorporate this approach into the development of an automated system for helping users define privacy policy. As part of future work, we discuss how to define/expand policy to the entire social network. We also present additional collected data similar to other studies such as perceived tie strength and information revelation preferences for OSN users.

  14. A Hybrid Satellite-Terrestrial Approach to Aeronautical Communication Networks

    NASA Technical Reports Server (NTRS)

    Kerczewski, Robert J.; Chomos, Gerald J.; Griner, James H.; Mainger, Steven W.; Martzaklis, Konstantinos S.; Kachmar, Brian A.

    2000-01-01

    Rapid growth in air travel has been projected to continue for the foreseeable future. To maintain a safe and efficient national and global aviation system, significant advances in communications systems supporting aviation are required. Satellites will increasingly play a critical role in the aeronautical communications network. At the same time, current ground-based communications links, primarily very high frequency (VHF), will continue to be employed due to cost advantages and legacy issues. Hence a hybrid satellite-terrestrial network, or group of networks, will emerge. The increased complexity of future aeronautical communications networks dictates that system-level modeling be employed to obtain an optimal system fulfilling a majority of user needs. The NASA Glenn Research Center is investigating the current and potential future state of aeronautical communications, and is developing a simulation and modeling program to research future communications architectures for national and global aeronautical needs. This paper describes the primary requirements, the current infrastructure, and emerging trends of aeronautical communications, including a growing role for satellite communications. The need for a hybrid communications system architecture approach including both satellite and ground-based communications links is explained. Future aeronautical communication network topologies and key issues in simulation and modeling of future aeronautical communications systems are described.

  15. Autonomous control of production networks using a pheromone approach

    NASA Astrophysics Data System (ADS)

    Armbruster, D.; de Beer, C.; Freitag, M.; Jagalski, T.; Ringhofer, C.

    2006-04-01

    The flow of parts through a production network is usually pre-planned by a central control system. Such central control fails in presence of highly fluctuating demand and/or unforeseen disturbances. To manage such dynamic networks according to low work-in-progress and short throughput times, an autonomous control approach is proposed. Autonomous control means a decentralized routing of the autonomous parts themselves. The parts’ decisions base on backward propagated information about the throughput times of finished parts for different routes. So, routes with shorter throughput times attract parts to use this route again. This process can be compared to ants leaving pheromones on their way to communicate with following ants. The paper focuses on a mathematical description of such autonomously controlled production networks. A fluid model with limited service rates in a general network topology is derived and compared to a discrete-event simulation model. Whereas the discrete-event simulation of production networks is straightforward, the formulation of the addressed scenario in terms of a fluid model is challenging. Here it is shown, how several problems in a fluid model formulation (e.g. discontinuities) can be handled mathematically. Finally, some simulation results for the pheromone-based control with both the discrete-event simulation model and the fluid model are presented for a time-dependent influx.

  16. A novel approach to characterize information radiation in complex networks

    NASA Astrophysics Data System (ADS)

    Wang, Xiaoyang; Wang, Ying; Zhu, Lin; Li, Chao

    2016-06-01

    The traditional research of information dissemination is mostly based on the virus spreading model that the information is being spread by probability, which does not match very well to the reality, because the information that we receive is always more or less than what was sent. In order to quantitatively describe variations in the amount of information during the spreading process, this article proposes a safety information radiation model on the basis of communication theory, combining with relevant theories of complex networks. This model comprehensively considers the various influence factors when safety information radiates in the network, and introduces some concepts from the communication theory perspective, such as the radiation gain function, receiving gain function, information retaining capacity and information second reception capacity, to describe the safety information radiation process between nodes and dynamically investigate the states of network nodes. On a micro level, this article analyzes the influence of various initial conditions and parameters on safety information radiation through the new model simulation. The simulation reveals that this novel approach can reflect the variation of safety information quantity of each node in the complex network, and the scale-free network has better "radiation explosive power", while the small-world network has better "radiation staying power". The results also show that it is efficient to improve the overall performance of network security by selecting nodes with high degrees as the information source, refining and simplifying the information, increasing the information second reception capacity and decreasing the noises. In a word, this article lays the foundation for further research on the interactions of information and energy between internal components within complex systems.

  17. Assessing Collaboration Networks in Educational Research: A Co-Authorship-Based Social Network Analysis Approach

    ERIC Educational Resources Information Center

    Munoz, David Andres; Queupil, Juan Pablo; Fraser, Pablo

    2016-01-01

    Purpose: The purpose of this paper is to analyze collaboration networks and their patterns among higher education institutions (HEIs) in Chile and the Latin American region. This will provide evidence to educational managements in order to properly allocate their efforts to improve collaboration. Design/methodology/approach: This quantitative…

  18. Hierarchical Brain Networks Active in Approach and Avoidance Goal Pursuit

    PubMed Central

    Spielberg, Jeffrey M.; Heller, Wendy; Miller, Gregory A.

    2013-01-01

    Effective approach/avoidance goal pursuit is critical for attaining long-term health and well-being. Research on the neural correlates of key goal-pursuit processes (e.g., motivation) has long been of interest, with lateralization in prefrontal cortex being a particularly fruitful target of investigation. However, this literature has often been limited by a lack of spatial specificity and has not delineated the precise aspects of approach/avoidance motivation involved. Additionally, the relationships among brain regions (i.e., network connectivity) vital to goal-pursuit remain largely unexplored. Specificity in location, process, and network relationship is vital for moving beyond gross characterizations of function and identifying the precise cortical mechanisms involved in motivation. The present paper integrates research using more spatially specific methodologies (e.g., functional magnetic resonance imaging) with the rich psychological literature on approach/avoidance to propose an integrative network model that takes advantage of the strengths of each of these literatures. PMID:23785328

  19. A Predictive Approach to Network Reverse-Engineering

    NASA Astrophysics Data System (ADS)

    Wiggins, Chris

    2005-03-01

    A central challenge of systems biology is the ``reverse engineering" of transcriptional networks: inferring which genes exert regulatory control over which other genes. Attempting such inference at the genomic scale has only recently become feasible, via data-intensive biological innovations such as DNA microrrays (``DNA chips") and the sequencing of whole genomes. In this talk we present a predictive approach to network reverse-engineering, in which we integrate DNA chip data and sequence data to build a model of the transcriptional network of the yeast S. cerevisiae capable of predicting the response of genes in unseen experiments. The technique can also be used to extract ``motifs,'' sequence elements which act as binding sites for regulatory proteins. We validate by a number of approaches and present comparison of theoretical prediction vs. experimental data, along with biological interpretations of the resulting model. En route, we will illustrate some basic notions in statistical learning theory (fitting vs. over-fitting; cross- validation; assessing statistical significance), highlighting ways in which physicists can make a unique contribution in data- driven approaches to reverse engineering.

  20. Network-Based Approaches in Drug Discovery and Early Development

    PubMed Central

    Harrold, JM; Ramanathan, M; Mager, DE

    2015-01-01

    Identification of novel targets is a critical first step in the drug discovery and development process. Most diseases such as cancer, metabolic disorders, and neurological disorders are complex, and their pathogenesis involves multiple genetic and environmental factors. Finding a viable drug target–drug combination with high potential for yielding clinical success within the efficacy–toxicity spectrum is extremely challenging. Many examples are now available in which network-based approaches show potential for the identification of novel targets and for the repositioning of established targets. The objective of this article is to highlight network approaches for identifying novel targets with greater chances of gaining approved drugs with maximal efficacy and minimal side effects. Further enhancement of these approaches may emerge from effectively integrating computational systems biology with pharmacodynamic systems analysis. Coupling genomics, proteomics, and metabolomics databases with systems pharmacology modeling may aid in the development of disease-specific networks that can be further used to build confidence in target identification. PMID:24025802

  1. ADHD classification using bag of words approach on network features

    NASA Astrophysics Data System (ADS)

    Solmaz, Berkan; Dey, Soumyabrata; Rao, A. Ravishankar; Shah, Mubarak

    2012-02-01

    Attention Deficit Hyperactivity Disorder (ADHD) is receiving lots of attention nowadays mainly because it is one of the common brain disorders among children and not much information is known about the cause of this disorder. In this study, we propose to use a novel approach for automatic classification of ADHD conditioned subjects and control subjects using functional Magnetic Resonance Imaging (fMRI) data of resting state brains. For this purpose, we compute the correlation between every possible voxel pairs within a subject and over the time frame of the experimental protocol. A network of voxels is constructed by representing a high correlation value between any two voxels as an edge. A Bag-of-Words (BoW) approach is used to represent each subject as a histogram of network features; such as the number of degrees per voxel. The classification is done using a Support Vector Machine (SVM). We also investigate the use of raw intensity values in the time series for each voxel. Here, every subject is represented as a combined histogram of network and raw intensity features. Experimental results verified that the classification accuracy improves when the combined histogram is used. We tested our approach on a highly challenging dataset released by NITRC for ADHD-200 competition and obtained promising results. The dataset not only has a large size but also includes subjects from different demography and edge groups. To the best of our knowledge, this is the first paper to propose BoW approach in any functional brain disorder classification and we believe that this approach will be useful in analysis of many brain related conditions.

  2. HEMODOSE: A Biodosimetry Tool Based on Multi-type Blood Cell Counts

    PubMed Central

    Hu, Shaowen; Blakely, William F.; Cucinotta, Francis A.

    2015-01-01

    Abstract Peripheral blood cell counts are important biomarkers of radiation exposure. In this work, a simplified compartmental modeling approach is applied to simulate the perturbation of the hematopoiesis system in humans after radiation exposure, and HemoDose software is reported to estimate individuals’ absorbed doses based on multi-type blood cell counts. Testing with patient data in some historical accidents indicates that either single or serial granulocyte, lymphocyte, leukocyte, and platelet counts after exposure can be robust indicators of the absorbed doses. In addition, such correlation exists not only in the early time window (1 or 2 d) but also in the late phase (up to 4 wk) after exposure, when the four types of cell counts are combined for analysis. These demonstrate the capability of HemoDose as a rapid point-of-care diagnostic or centralized high-throughput assay system for personnel exposed to unintended high doses of radiation, especially in large-scale nuclear/radiological disaster scenarios involving mass casualties. PMID:26011498

  3. A Passive Testing Approach for Protocols in Wireless Sensor Networks

    PubMed Central

    Che, Xiaoping; Maag, Stephane; Tan, Hwee-Xian; Tan, Hwee-Pink; Zhou, Zhangbing

    2015-01-01

    Smart systems are today increasingly developed with the number of wireless sensor devices drastically increasing. They are implemented within several contexts throughout our environment. Thus, sensed data transported in ubiquitous systems are important, and the way to carry them must be efficient and reliable. For that purpose, several routing protocols have been proposed for wireless sensor networks (WSN). However, one stage that is often neglected before their deployment is the conformance testing process, a crucial and challenging step. Compared to active testing techniques commonly used in wired networks, passive approaches are more suitable to the WSN environment. While some works propose to specify the protocol with state models or to analyze them with simulators and emulators, we here propose a logic-based approach for formally specifying some functional requirements of a novel WSN routing protocol. We provide an algorithm to evaluate these properties on collected protocol execution traces. Further, we demonstrate the efficiency and suitability of our approach by its application into common WSN functional properties, as well as specific ones designed from our own routing protocol. We provide relevant testing verdicts through a real indoor testbed and the implementation of our protocol. Furthermore, the flexibility, genericity and practicability of our approach have been proven by the experimental results. PMID:26610495

  4. A Passive Testing Approach for Protocols in Wireless Sensor Networks.

    PubMed

    Che, Xiaoping; Maag, Stephane; Tan, Hwee-Xian; Tan, Hwee-Pink; Zhou, Zhangbing

    2015-01-01

    Smart systems are today increasingly developed with the number of wireless sensor devices drastically increasing. They are implemented within several contexts throughout our environment. Thus, sensed data transported in ubiquitous systems are important, and the way to carry them must be efficient and reliable. For that purpose, several routing protocols have been proposed for wireless sensor networks (WSN). However, one stage that is often neglected before their deployment is the conformance testing process, a crucial and challenging step. Compared to active testing techniques commonly used in wired networks, passive approaches are more suitable to the WSN environment. While some works propose to specify the protocol with state models or to analyze them with simulators and emulators, we here propose a logic-based approach for formally specifying some functional requirements of a novel WSN routing protocol. We provide an algorithm to evaluate these properties on collected protocol execution traces. Further, we demonstrate the efficiency and suitability of our approach by its application into common WSN functional properties, as well as specific ones designed from our own routing protocol. We provide relevant testing verdicts through a real indoor testbed and the implementation of our protocol. Furthermore, the flexibility, genericity and practicability of our approach have been proven by the experimental results. PMID:26610495

  5. A Bayesian approach for structure learning in oscillating regulatory networks

    PubMed Central

    Trejo Banos, Daniel; Millar, Andrew J.; Sanguinetti, Guido

    2015-01-01

    Motivation: Oscillations lie at the core of many biological processes, from the cell cycle, to circadian oscillations and developmental processes. Time-keeping mechanisms are essential to enable organisms to adapt to varying conditions in environmental cycles, from day/night to seasonal. Transcriptional regulatory networks are one of the mechanisms behind these biological oscillations. However, while identifying cyclically expressed genes from time series measurements is relatively easy, determining the structure of the interaction network underpinning the oscillation is a far more challenging problem. Results: Here, we explicitly leverage the oscillatory nature of the transcriptional signals and present a method for reconstructing network interactions tailored to this special but important class of genetic circuits. Our method is based on projecting the signal onto a set of oscillatory basis functions using a Discrete Fourier Transform. We build a Bayesian Hierarchical model within a frequency domain linear model in order to enforce sparsity and incorporate prior knowledge about the network structure. Experiments on real and simulated data show that the method can lead to substantial improvements over competing approaches if the oscillatory assumption is met, and remains competitive also in cases it is not. Availability: DSS, experiment scripts and data are available at http://homepages.inf.ed.ac.uk/gsanguin/DSS.zip. Contact: d.trejo-banos@sms.ed.ac.uk Supplementary information: Supplementary data are available at Bioinformatics online. PMID:26177966

  6. What can we learn from the network approach in finance?

    NASA Astrophysics Data System (ADS)

    Janos, Kertesz

    2005-03-01

    Correlations between variations of stock prices reveal information about relationships between companies. Different methods of analysis have been applied to such data in order to uncover the taxonomy of the market. We use Mantegna's miminum spanning tree (MST) method for daily data in a dynamic way: By introducing a moving window we study the temporal changes in the structure of the network defined by this ``asset tree.'' The MST is scale free with a significantly changing exponent of the degree distribution for crash periods, which demonstrates the restructuring of the network due to the enhancement of correlations. This approach is compared to that based on what we call ``asset graphs:'' We start from an empty graph with no edges where the vertices correspond to stocks and then, one by one, we insert edges between the vertices according to the rank of their correlation strength. We study the properties of the creatred (weighted) networks, such as topologically different growth types, number and size of clusters and clustering coefficient. Furthermore, we define new tools like subgraph intensity and coherence to describe the role of the weights. We also investigate the time shifted cross correlation functions for high frequency data and find a characteristic time delay in many cases representing that some stocks lead the price changes while others follow them. These data can be used to construct a directed network of influence.

  7. Chemical reaction network approaches to Biochemical Systems Theory.

    PubMed

    Arceo, Carlene Perpetua P; Jose, Editha C; Marin-Sanguino, Alberto; Mendoza, Eduardo R

    2015-11-01

    This paper provides a framework to represent a Biochemical Systems Theory (BST) model (in either GMA or S-system form) as a chemical reaction network with power law kinetics. Using this representation, some basic properties and the application of recent results of Chemical Reaction Network Theory regarding steady states of such systems are shown. In particular, Injectivity Theory, including network concordance [36] and the Jacobian Determinant Criterion [43], a "Lifting Theorem" for steady states [26] and the comprehensive results of Müller and Regensburger [31] on complex balanced equilibria are discussed. A partial extension of a recent Emulation Theorem of Cardelli for mass action systems [3] is derived for a subclass of power law kinetic systems. However, it is also shown that the GMA and S-system models of human purine metabolism [10] do not display the reactant-determined kinetics assumed by Müller and Regensburger and hence only a subset of BST models can be handled with their approach. Moreover, since the reaction networks underlying many BST models are not weakly reversible, results for non-complex balanced equilibria are also needed.

  8. Multidimensional stock network analysis: An Escoufier's RV coefficient approach

    NASA Astrophysics Data System (ADS)

    Lee, Gan Siew; Djauhari, Maman A.

    2013-09-01

    The current practice of stocks network analysis is based on the assumption that the time series of closed stock price could represent the behaviour of the each stock. This assumption leads to consider minimal spanning tree (MST) and sub-dominant ultrametric (SDU) as an indispensible tool to filter the economic information contained in the network. Recently, there is an attempt where researchers represent stock not only as a univariate time series of closed price but as a bivariate time series of closed price and volume. In this case, they developed the so-called multidimensional MST to filter the important economic information. However, in this paper, we show that their approach is only applicable for that bivariate time series only. This leads us to introduce a new methodology to construct MST where each stock is represented by a multivariate time series. An example of Malaysian stock exchange will be presented and discussed to illustrate the advantages of the method.

  9. Preliminary gas turbine combustor design using a network approach

    SciTech Connect

    Stuttaford, P.J.; Rubini, P.A.

    1997-07-01

    The preliminary design process of a gas turbine combustor often involves the use of cumbersome, geometry restrictive semi-empirical models. The objective of this analysis is the development of a versatile design tool for gas turbine combustors, able to model all conceivable combustor types. A network approach is developed that divides the flow into a number of independent semi-empirical subflows. A pressure-correction methodology solves the continuity equation and a pressure-drop/flow rate relationship. The development of a full conjugate heat transfer model allows the calculation of flame tube heat loss in the presence of cooling films, annulus heat addition, and flame tube feature heat pick-up. A constrained equilibrium calculation, incorporating mixing and recirculation models, simulates combustion processes. Comparison of airflow results to a well-validated combustor design code showed close agreement. The versatility of the network solver is illustrated with comparisons to experimental data from a reverse flow combustor.

  10. Approaches for recognizing disease genes based on network.

    PubMed

    Zou, Quan; Li, Jinjin; Wang, Chunyu; Zeng, Xiangxiang

    2014-01-01

    Diseases are closely related to genes, thus indicating that genetic abnormalities may lead to certain diseases. The recognition of disease genes has long been a goal in biology, which may contribute to the improvement of health care and understanding gene functions, pathways, and interactions. However, few large-scale gene-gene association datasets, disease-disease association datasets, and gene-disease association datasets are available. A number of machine learning methods have been used to recognize disease genes based on networks. This paper states the relationship between disease and gene, summarizes the approaches used to recognize disease genes based on network, analyzes the core problems and challenges of the methods, and outlooks future research direction.

  11. Developing a space network interface simulator: The NTS approach

    NASA Technical Reports Server (NTRS)

    Hendrzak, Gary E.

    1993-01-01

    This paper describes the approach used to redevelop the Network Control Center (NCC) Test System (NTS), a hardware and software facility designed to make testing of the NCC Data System (NCCDS) software efficient, effective, and as rigorous as possible prior to operational use. The NTS transmits and receives network message traffic in real-time. Data transfer rates and message content are strictly controlled and are identical to that of the operational systems. NTS minimizes the need for costly and time-consuming testing with the actual external entities (e.g., the Hubble Space Telescope (HST) Payload Operations Control Center (POCC) and the White Sands Ground Terminal). Discussed are activities associated with the development of the NTS, lessons learned throughout the project's lifecycle, and resulting productivity and quality increases.

  12. Sport, how people choose it: A network analysis approach.

    PubMed

    Ferreri, Luca; Ivaldi, Marco; Daolio, Fabio; Giacobini, Mario; Rainoldi, Alberto; Tomassini, Marco

    2015-01-01

    In order to investigate the behaviour of athletes in choosing sports, we analyse data from part of the We-Sport database, a vertical social network that links athletes through sports. In particular, we explore connections between people sharing common sports and the role of age and gender by applying "network science" approaches and methods. The results show a disassortative tendency of athletes in choosing sports, a negative correlation between age and number of chosen sports and a positive correlation between age of connected athletes. Some interesting patterns of connection between age classes are depicted. In addition, we propose a method to classify sports, based on the analyses of the behaviour of people practising them. Thanks to this brand new classifications, we highlight the links of class of sports and their unexpected features. We emphasise some gender dependency affinity in choosing sport classes.

  13. A Neural Network Approach to Smarter Sensor Networks for Water Quality Monitoring

    PubMed Central

    O'Connor, Edel; Smeaton, Alan F.; O'Connor, Noel E.; Regan, Fiona

    2012-01-01

    Environmental monitoring is evolving towards large-scale and low-cost sensor networks operating reliability and autonomously over extended periods of time. Sophisticated analytical instrumentation such as chemo-bio sensors present inherent limitations because of the number of samples that they can take. In order to maximize their deployment lifetime, we propose the coordination of multiple heterogeneous information sources. We use rainfall radar images and information from a water depth sensor as input to a neural network (NN) to dictate the sampling frequency of a phosphate analyzer at the River Lee in Cork, Ireland. This approach shows varied performance for different times of the year but overall produces output that is very satisfactory for the application context in question. Our study demonstrates that even with limited training data, a system for controlling the sampling rate of the nutrient sensor can be set up and can improve the efficiency of the more sophisticated nodes of the sensor network. PMID:22666048

  14. A Rawlsian Approach to Distribute Responsibilities in Networks

    PubMed Central

    2009-01-01

    Due to their non-hierarchical structure, socio-technical networks are prone to the occurrence of the problem of many hands. In the present paper an approach is introduced in which people’s opinions on responsibility are empirically traced. The approach is based on the Rawlsian concept of Wide Reflective Equilibrium (WRE) in which people’s considered judgments on a case are reflectively weighed against moral principles and background theories, ideally leading to a state of equilibrium. Application of the method to a hypothetical case with an artificially constructed network showed that it is possible to uncover the relevant data to assess a consensus amongst people in terms of their individual WRE. It appeared that the moral background theories people endorse are not predictive for their actual distribution of responsibilities but that they indicate ways of reasoning and justifying outcomes. Two ways of ascribing responsibilities were discerned, corresponding to two requirements of a desirable responsibility distribution: fairness and completeness. Applying the method triggered learning effects, both with regard to conceptual clarification and moral considerations, and in the sense that it led to some convergence of opinions. It is recommended to apply the method to a real engineering case in order to see whether this approach leads to an overlapping consensus on a responsibility distribution which is justifiable to all and in which no responsibilities are left unfulfilled, therewith trying to contribute to the solution of the problem of many hands. PMID:19626463

  15. Prognostic models in coronary artery disease: Cox and network approaches

    PubMed Central

    Mora, Antonio; Sicari, Rosa; Cortigiani, Lauro; Carpeggiani, Clara; Picano, Eugenio; Capobianco, Enrico

    2015-01-01

    Predictive assessment of the risk of developing cardiovascular diseases is usually provided by computational approaches centred on Cox models. The complex interdependence structure underlying clinical data patterns can limit the performance of Cox analysis and complicate the interpretation of results, thus calling for complementary and integrative methods. Prognostic models are proposed for studying the risk associated with patients with known or suspected coronary artery disease (CAD) undergoing vasodilator stress echocardiography, an established technique for CAD detection and prognostication. In order to complement standard Cox models, network inference is considered a possible solution to quantify the complex relationships between heterogeneous data categories. In particular, a mutual information network is designed to explore the paths linking patient-associated variables to endpoint events, to reveal prognostic factors and to identify the best possible predictors of death. Data from a prospective, multicentre, observational study are available from a previous study, based on 4313 patients (2532 men; 64±11 years) with known (n=1547) or suspected (n=2766) CAD, who underwent high-dose dipyridamole (0.84 mg kg−1 over 6 min) stress echocardiography with coronary flow reserve (CFR) evaluation of left anterior descending (LAD) artery by Doppler. The overall mortality was the only endpoint analysed by Cox models. The estimated connectivity between clinical variables assigns a complementary value to the proposed network approach in relation to the established Cox model, for instance revealing connectivity paths. Depending on the use of multiple metrics, the constraints of regression analysis in measuring the association strength among clinical variables can be relaxed, and identification of communities and prognostic paths can be provided. On the basis of evidence from various model comparisons, we show in this CAD study that there may be characteristic

  16. Prognostic models in coronary artery disease: Cox and network approaches.

    PubMed

    Mora, Antonio; Sicari, Rosa; Cortigiani, Lauro; Carpeggiani, Clara; Picano, Eugenio; Capobianco, Enrico

    2015-02-01

    Predictive assessment of the risk of developing cardiovascular diseases is usually provided by computational approaches centred on Cox models. The complex interdependence structure underlying clinical data patterns can limit the performance of Cox analysis and complicate the interpretation of results, thus calling for complementary and integrative methods. Prognostic models are proposed for studying the risk associated with patients with known or suspected coronary artery disease (CAD) undergoing vasodilator stress echocardiography, an established technique for CAD detection and prognostication. In order to complement standard Cox models, network inference is considered a possible solution to quantify the complex relationships between heterogeneous data categories. In particular, a mutual information network is designed to explore the paths linking patient-associated variables to endpoint events, to reveal prognostic factors and to identify the best possible predictors of death. Data from a prospective, multicentre, observational study are available from a previous study, based on 4313 patients (2532 men; 64±11 years) with known (n=1547) or suspected (n=2766) CAD, who underwent high-dose dipyridamole (0.84 mg kg(-1) over 6 min) stress echocardiography with coronary flow reserve (CFR) evaluation of left anterior descending (LAD) artery by Doppler. The overall mortality was the only endpoint analysed by Cox models. The estimated connectivity between clinical variables assigns a complementary value to the proposed network approach in relation to the established Cox model, for instance revealing connectivity paths. Depending on the use of multiple metrics, the constraints of regression analysis in measuring the association strength among clinical variables can be relaxed, and identification of communities and prognostic paths can be provided. On the basis of evidence from various model comparisons, we show in this CAD study that there may be characteristic

  17. Neural network approach to B →Xuℓν

    NASA Astrophysics Data System (ADS)

    Gambino, Paolo; Healey, Kristopher J.; Mondino, Cristina

    2016-07-01

    We use artificial neural networks to parametrize the shape functions in inclusive semileptonic B decays without charm. Our approach avoids the adoption of functional form models and allows for a straightforward implementation of all experimental and theoretical constraints on the shape functions. The results are used to extract |Vu b| in the GGOU framework and compared with the original GGOU paper and the latest HFAG results, finding good agreement in both cases. The possible impact of future Belle-II data on the MX distribution is also discussed.

  18. Scalar and Multivariate Approaches for Optimal Network Design in Antarctica

    NASA Astrophysics Data System (ADS)

    Hryniw, Natalia

    Observations are crucial for weather and climate, not only for daily forecasts and logistical purposes, for but maintaining representative records and for tuning atmospheric models. Here scalar theory for optimal network design is expanded in a multivariate framework, to allow for optimal station siting for full field optimization. Ensemble sensitivity theory is expanded to produce the covariance trace approach, which optimizes for the trace of the covariance matrix. Relative entropy is also used for multivariate optimization as an information theory approach for finding optimal locations. Antarctic surface temperature data is used as a testbed for these methods. Both methods produce different results which are tied to the fundamental physical parameters of the Antarctic temperature field.

  19. A Systems Approach to Scalable Transportation Network Modeling

    SciTech Connect

    Perumalla, Kalyan S

    2006-01-01

    Emerging needs in transportation network modeling and simulation are raising new challenges with respect to scal-ability of network size and vehicular traffic intensity, speed of simulation for simulation-based optimization, and fidel-ity of vehicular behavior for accurate capture of event phe-nomena. Parallel execution is warranted to sustain the re-quired detail, size and speed. However, few parallel simulators exist for such applications, partly due to the challenges underlying their development. Moreover, many simulators are based on time-stepped models, which can be computationally inefficient for the purposes of modeling evacuation traffic. Here an approach is presented to de-signing a simulator with memory and speed efficiency as the goals from the outset, and, specifically, scalability via parallel execution. The design makes use of discrete event modeling techniques as well as parallel simulation meth-ods. Our simulator, called SCATTER, is being developed, incorporating such design considerations. Preliminary per-formance results are presented on benchmark road net-works, showing scalability to one million vehicles simu-lated on one processor.

  20. Patterns of work attitudes: A neural network approach

    NASA Astrophysics Data System (ADS)

    Mengov, George D.; Zinovieva, Irina L.; Sotirov, George R.

    2000-05-01

    In this paper we introduce a neural networks based approach to analyzing empirical data and models from work and organizational psychology (WOP), and suggest possible implications for the practice of managers and business consultants. With this method it becomes possible to have quantitative answers to a bunch of questions like: What are the characteristics of an organization in terms of its employees' motivation? What distinct attitudes towards the work exist? Which pattern is most desirable from the standpoint of productivity and professional achievement? What will be the dynamics of behavior as quantified by our method, during an ongoing organizational change or consultancy intervention? Etc. Our investigation is founded on the theoretical achievements of Maslow (1954, 1970) in human motivation, and of Hackman & Oldham (1975, 1980) in job diagnostics, and applies the mathematical algorithm of the dARTMAP variation (Carpenter et al., 1998) of the Adaptive Resonance Theory (ART) neural networks introduced by Grossberg (1976). We exploit the ART capabilities to visualize the knowledge accumulated in the network's long-term memory in order to interpret the findings in organizational research.

  1. Pattern recognition tool based on complex network-based approach

    NASA Astrophysics Data System (ADS)

    Casanova, Dalcimar; Backes, André Ricardo; Martinez Bruno, Odemir

    2013-02-01

    This work proposed a generalization of the method proposed by the authors: 'A complex network-based approach for boundary shape analysis'. Instead of modelling a contour into a graph and use complex networks rules to characterize it, here, we generalize the technique. This way, the work proposes a mathematical tool for characterization signals, curves and set of points. To evaluate the pattern description power of the proposal, an experiment of plat identification based on leaf veins image are conducted. Leaf vein is a taxon characteristic used to plant identification proposes, and one of its characteristics is that these structures are complex, and difficult to be represented as a signal or curves and this way to be analyzed in a classical pattern recognition approach. Here, we model the veins as a set of points and model as graphs. As features, we use the degree and joint degree measurements in a dynamic evolution. The results demonstrates that the technique has a good power of discrimination and can be used for plant identification, as well as other complex pattern recognition tasks.

  2. Random walk approach for dispersive transport in pipe networks

    NASA Astrophysics Data System (ADS)

    Sämann, Robert; Graf, Thomas; Neuweiler, Insa

    2016-04-01

    Keywords: particle transport, random walk, pipe, network, HYSTEM-EXTAN, OpenGeoSys After heavy pluvial events in urban areas the available drainage system may be undersized at peak flows (Fuchs, 2013). Consequently, rainwater in the pipe network is likely to spill out through manholes. The presence of hazardous contaminants in the pipe drainage system represents a potential risk to humans especially when the contaminated drainage water reaches the land surface. Real-time forecasting of contaminants in the drainage system needs a quick calculation. Numerical models to predict the fate of contaminants are usually based on finite volume methods. Those are not applicable here because of their volume averaging elements. Thus, a more efficient method is preferable, which is independent from spatial discretization. In the present study, a particle-based method is chosen to calculate transport paths and spatial distribution of contaminants within a pipe network. A random walk method for particles in turbulent flow in partially filled pipes has been developed. Different approaches for in-pipe-mixing and node-mixing with respect to the geometry in a drainage network are shown. A comparison of dispersive behavior and calculation time is given to find the fastest model. The HYSTEM-EXTRAN (itwh, 2002) model is used to provide hydrodynamic conditions in the pipe network according to surface runoff scenarios in order to real-time predict contaminant transport in an urban pipe network system. The newly developed particle-based model will later be coupled to the subsurface flow model OpenGeoSys (Kolditz et al., 2012). References: Fuchs, L. (2013). Gefährdungsanalyse zur Überflutungsvorsorge kommunaler Entwässerungssysteme. Sanierung und Anpassung von Entwässerungssystemen-Alternde Infrastruktur und Klimawandel, Österreichischer Wasser-und Abfallwirtschaftsverband, Wien, ISBN, 978-3. itwh (2002). Modellbeschreibung, Institut für technisch-wissenschaftliche Hydrologie Gmb

  3. A neural network based reputation bootstrapping approach for service selection

    NASA Astrophysics Data System (ADS)

    Wu, Quanwang; Zhu, Qingsheng; Li, Peng

    2015-10-01

    With the concept of service-oriented computing becoming widely accepted in enterprise application integration, more and more computing resources are encapsulated as services and published online. Reputation mechanism has been studied to establish trust on prior unknown services. One of the limitations of current reputation mechanisms is that they cannot assess the reputation of newly deployed services as no record of their previous behaviours exists. Most of the current bootstrapping approaches merely assign default reputation values to newcomers. However, by this kind of methods, either newcomers or existing services will be favoured. In this paper, we present a novel reputation bootstrapping approach, where correlations between features and performance of existing services are learned through an artificial neural network (ANN) and they are then generalised to establish a tentative reputation when evaluating new and unknown services. Reputations of services published previously by the same provider are also incorporated for reputation bootstrapping if available. The proposed reputation bootstrapping approach is seamlessly embedded into an existing reputation model and implemented in the extended service-oriented architecture. Empirical studies of the proposed approach are shown at last.

  4. Social network approaches to recruitment, HIV prevention, medical care, and medication adherence.

    PubMed

    Latkin, Carl A; Davey-Rothwell, Melissa A; Knowlton, Amy R; Alexander, Kamila A; Williams, Chyvette T; Boodram, Basmattee

    2013-06-01

    This article reviews the current issues and advancements in social network approaches to HIV prevention and care. Social network analysis can provide a method to understand health disparities in HIV rates, treatment access, and outcomes. Social network analysis is a valuable tool to link social structural factors to individual behaviors. Social networks provide an avenue for low-cost and sustainable HIV prevention interventions that can be adapted and translated into diverse populations. Social networks can be utilized as a viable approach to recruitment for HIV testing and counseling, HIV prevention interventions, optimizing HIV medical care, and medication adherence. Social network interventions may be face-to-face or through social media. Key issues in designing social network interventions are contamination due to social diffusion, network stability, density, and the choice and training of network members. There are also ethical issues involved in the development and implementation of social network interventions. Social network analyses can also be used to understand HIV transmission dynamics.

  5. Neural network approach to classification of infrasound signals

    NASA Astrophysics Data System (ADS)

    Lee, Dong-Chang

    As part of the International Monitoring Systems of the Preparatory Commissions for the Comprehensive Nuclear Test-Ban Treaty Organization, the Infrasound Group at the University of Alaska Fairbanks maintains and operates two infrasound stations to monitor global nuclear activity. In addition, the group specializes in detecting and classifying the man-made and naturally produced signals recorded at both stations by computing various characterization parameters (e.g. mean of the cross correlation maxima, trace velocity, direction of arrival, and planarity values) using the in-house developed weighted least-squares algorithm. Classifying commonly observed low-frequency (0.015--0.1 Hz) signals at out stations, namely mountain associated waves and high trace-velocity signals, using traditional approach (e.g. analysis of power spectral density) presents a problem. Such signals can be separated statistically by setting a window to the trace-velocity estimate for each signal types, and the feasibility of such technique is demonstrated by displaying and comparing various summary plots (e.g. universal, seasonal and azimuthal variations) produced by analyzing infrasound data (2004--2007) from the Fairbanks and Antarctic arrays. Such plots with the availability of magnetic activity information (from the College International Geophysical Observatory located at Fairbanks, Alaska) leads to possible physical sources of the two signal types. Throughout this thesis a newly developed robust algorithm (sum of squares of variance ratios) with improved detection quality (under low signal to noise ratios) over two well-known detection algorithms (mean of the cross correlation maxima and Fisher Statistics) are investigated for its efficacy as a new detector. A neural network is examined for its ability to automatically classify the two signals described above against clutter (spurious signals with common characteristics). Four identical perceptron networks are trained and validated (with

  6. A neural-network approach for visual cryptography and authorization.

    PubMed

    Yue, Tai-Wen; Chiang, Suchen

    2004-06-01

    In this paper, we propose a neural-network approach for visual authorization, which is an application of visual cryptography (VC). The scheme contains a key-share and a set of user-shares. The administrator owns the key-share, and each user owns a user-share issued by the administrator from the user-share set. The shares in the user-share set are visually indistinguishable, i.e. they have the same pictorial meaning. However, the stacking of the key-share with different user-shares will reveal significantly different images. Therefore, the administrator (in fact, only the administrator) can visually recognize the authority assigned to a particular user by viewing the information appearing in the superposed image of key-share and user-share. This approach is completely different from traditional VC approaches. The salient features include: (i) the access schemes are described using a set of graytone images, and (ii) the codebooks to fulfil them are not required; and (iii) the size of share images is the same as the size of target image.

  7. Automatic voice recognition using traditional and artificial neural network approaches

    NASA Technical Reports Server (NTRS)

    Botros, Nazeih M.

    1989-01-01

    The main objective of this research is to develop an algorithm for isolated-word recognition. This research is focused on digital signal analysis rather than linguistic analysis of speech. Features extraction is carried out by applying a Linear Predictive Coding (LPC) algorithm with order of 10. Continuous-word and speaker independent recognition will be considered in future study after accomplishing this isolated word research. To examine the similarity between the reference and the training sets, two approaches are explored. The first is implementing traditional pattern recognition techniques where a dynamic time warping algorithm is applied to align the two sets and calculate the probability of matching by measuring the Euclidean distance between the two sets. The second is implementing a backpropagation artificial neural net model with three layers as the pattern classifier. The adaptation rule implemented in this network is the generalized least mean square (LMS) rule. The first approach has been accomplished. A vocabulary of 50 words was selected and tested. The accuracy of the algorithm was found to be around 85 percent. The second approach is in progress at the present time.

  8. Internet-Based Approaches to Building Stakeholder Networks for Conservation and Natural Resource Management.

    EPA Science Inventory

    Social network analysis (SNA) is based on a conceptual network representation of social interactions and is an invaluable tool for conservation professionals to increase collaboration, improve information flow, and increase efficiency. We present two approaches to constructing in...

  9. Internet-Based Approaches to Building Stakeholder Networks for Conservation and Natural Resource Management

    EPA Science Inventory

    Social network analysis (SNA) is based on a conceptual network representation of social interactions and is an invaluable tool for conservation professionals to increase collaboration, improve information flow, and increase efficiency. We present two approaches to constructing i...

  10. NOSS: object-oriented approach to network management

    NASA Astrophysics Data System (ADS)

    Ureel, Danny; De Molder, M.; Mattheus, Rudy A.

    1993-10-01

    Facing the introduction of full-scale PACS systems the accent is undoubtedly made on the data transport and management which are mission critical. Not only the appropriate techniques such as the network architecture (certainly broadband based) and communication protocols (ATM) will have an influence on the performance, reliability and maintenance of the system and perhaps to a much larger extent the integrated view on the PACS data management. The later approach in our research team has been called NOSS, Network Object Server System. The concept allows the storage of any kind of object that will emerge in the future, of particular interest are the Multi-Media developments. The object distribution is done according to the intelligence of the NOSS, incorporating the requirements of the applications. The second accent in the project has been made on the distributed multi-vendor environment, focusing the integratability. Standardization in the field of interoperability will offer us to take advantage of services and applications like remote image processing and to offer image distribution and management services. The current state of the project is a pretty good analysis of the related standards and the work of new standard commissions. The results are reflected in a functional model. The feasibility and performance will be tested in a prototype running at the AZ-VUB.

  11. A neural network approach in diabetes management by insulin administration.

    PubMed

    Gogou, G; Maglaveras, N; Ambrosiadou, B V; Goulis, D; Pappas, C

    2001-04-01

    Diabetes management by insulin administration is based on medical experts' experience, intuition, and expertise. As there is very little information in medical literature concerning practical aspects of this issue, medical experts adopt their own rules for insulin regimen specification and dose adjustment. This paper investigates the application of a neural network approach for the development of a prototype system for knowledge classification in this domain. The system will further facilitate decision making for diabetic patient management by insulin administration. In particular, a generating algorithm for learning arbitrary classification is employed. The factors participating in the decision making were among other diabetes type, patient age, current treatment, glucose profile, physical activity, food intake, and desirable blood glucose control. The resulting system was trained with 100 cases and tested on 100 patient cases. The system proved to be applicable to this particular problem, classifying correctly 92% of the testing cases.

  12. An efficient approach to imaging underground hydraulic networks

    NASA Astrophysics Data System (ADS)

    Kumar, Mohi

    2012-07-01

    To better locate natural resources, treat pollution, and monitor underground networks associated with geothermal plants, nuclear waste repositories, and carbon dioxide sequestration sites, scientists need to be able to accurately characterize and image fluid seepage pathways below ground. With these images, scientists can gain knowledge of soil moisture content, the porosity of geologic formations, concentrations and locations of dissolved pollutants, and the locations of oil fields or buried liquid contaminants. Creating images of the unknown hydraulic environments underfoot is a difficult task that has typically relied on broad extrapolations from characteristics and tests of rock units penetrated by sparsely positioned boreholes. Such methods, however, cannot identify small-scale features and are very expensive to reproduce over a broad area. Further, the techniques through which information is extrapolated rely on clunky and mathematically complex statistical approaches requiring large amounts of computational power.

  13. A tessellated continuum approach to thermal analysis: discontinuity networks

    NASA Astrophysics Data System (ADS)

    Jiang, C.; Davey, K.; Prosser, R.

    2016-08-01

    Tessellated continuum mechanics is an approach for the representation of thermo-mechanical behaviour of porous media on tessellated continua. It involves the application of iteration function schemes using affine contraction and expansion maps, respectively, for the creation of porous fractal materials and associated tessellated continua. Highly complex geometries can be produced using a modest number of contraction mappings. The associated tessellations form the mesh in a numerical procedure. This paper tests the hypothesis that thermal analysis of porous structures can be achieved using a discontinuous Galerkin finite element method on a tessellation. Discontinuous behaviour is identified at a discontinuity network in a tessellation; its use is shown to provide a good representation of the physics relating to cellular heat exchanger designs. Results for different cellular designs (with corresponding tessellations) are contrasted against those obtained from direct analysis and very high accuracy is observed.

  14. Neural network approach to background modeling for video object segmentation.

    PubMed

    Culibrk, Dubravko; Marques, Oge; Socek, Daniel; Kalva, Hari; Furht, Borko

    2007-11-01

    This paper presents a novel background modeling and subtraction approach for video object segmentation. A neural network (NN) architecture is proposed to form an unsupervised Bayesian classifier for this application domain. The constructed classifier efficiently handles the segmentation in natural-scene sequences with complex background motion and changes in illumination. The weights of the proposed NN serve as a model of the background and are temporally updated to reflect the observed statistics of background. The segmentation performance of the proposed NN is qualitatively and quantitatively examined and compared to two extant probabilistic object segmentation algorithms, based on a previously published test pool containing diverse surveillance-related sequences. The proposed algorithm is parallelized on a subpixel level and designed to enable efficient hardware implementation.

  15. Parameter estimation of general regression neural network using Bayesian approach

    NASA Astrophysics Data System (ADS)

    Choir, Achmad Syahrul; Prasetyo, Rindang Bangun; Ulama, Brodjol Sutijo Suprih; Iriawan, Nur; Fitriasari, Kartika; Dokhi, Mohammad

    2016-02-01

    General Regression Neural Network (GRNN) has been applied in a large number of forecasting/prediction problem. Generally, there are two types of GRNN: GRNN which is based on kernel density; and Mixture Based GRNN (MBGRNN) which is based on adaptive mixture model. The main problem on GRNN modeling lays on how its parameters were estimated. In this paper, we propose Bayesian approach and its computation using Markov Chain Monte Carlo (MCMC) algorithms for estimating the MBGRNN parameters. This method is applied in simulation study. In this study, its performances are measured by using MAPE, MAE and RMSE. The application of Bayesian method to estimate MBGRNN parameters using MCMC is straightforward but it needs much iteration to achieve convergence.

  16. A biplex approach to PageRank centrality: From classic to multiplex networks.

    PubMed

    Pedroche, Francisco; Romance, Miguel; Criado, Regino

    2016-06-01

    In this paper, we present a new view of the PageRank algorithm inspired by multiplex networks. This new approach allows to introduce a new centrality measure for classic complex networks and a new proposal to extend the usual PageRank algorithm to multiplex networks. We give some analytical relations between these new approaches and the classic PageRank centrality measure, and we illustrate the new parameters presented by computing them on real underground networks.

  17. A biplex approach to PageRank centrality: From classic to multiplex networks.

    PubMed

    Pedroche, Francisco; Romance, Miguel; Criado, Regino

    2016-06-01

    In this paper, we present a new view of the PageRank algorithm inspired by multiplex networks. This new approach allows to introduce a new centrality measure for classic complex networks and a new proposal to extend the usual PageRank algorithm to multiplex networks. We give some analytical relations between these new approaches and the classic PageRank centrality measure, and we illustrate the new parameters presented by computing them on real underground networks. PMID:27368791

  18. Linguistic complex networks: Rationale, application, interpretation, and directions. Reply to comments on "Approaching human language with complex networks"

    NASA Astrophysics Data System (ADS)

    Cong, Jin; Liu, Haitao

    2014-12-01

    Amid the enthusiasm for real-world networks of the new millennium, the enquiry into linguistic networks is flourishing not only as a productive branch of the new networks science but also as a promising approach to linguistic research. Although the complex network approach constitutes a potential opportunity to make linguistics a science, the world of linguistics seems unprepared to embrace it. For one thing, linguistics has been largely unaffected by quantitative methods. Those who are accustomed to qualitative linguistic methods may find it hard to appreciate the application of quantitative properties of language such as frequency and length, not to mention quantitative properties of language modeled as networks. With this in mind, in our review [1] we restrict ourselves to the basics of complex networks and the new insights into human language with the application of complex networks. For another, while breaking new grounds and posing new challenges for linguistics, the complex network approach to human language as a new tradition of linguistic research is faced with challenges and unsolved issues of its own. It is no surprise that the comments on our review, especially their skepticism and suggestions, focus on various different aspects of the complex network approach to human language. We are grateful to all the insightful and penetrating comments, which, together with our review, mark a significant impetus to linguistic research from the complex network approach. In this reply, we would like to address four major issues of the complex network approach to human language, namely, a) its theoretical rationale, b) its application in linguistic research, c) interpretation of the results, and d) directions of future research.

  19. Stochastic approach to efficient design of belt conveyor networks

    SciTech Connect

    Sevim, H.

    1985-07-01

    Currently, the design of belt conveyor networks is based either on deterministic production assumptions or on simulation models. In this research project, the stochastic process at the coal face is expressed and formulated by a Semi-Markovian technique, and the subject is used as input in a computerized heuristic design model. The author previously has used a Semi-Markovian process to analyze longwall and room-and-pillar production operations. Results indicated that a coal flow in the section belt of a room-and-pillar operation would be expected only 20% of the time in a steady-state operation mode. Similarly, longwall face operations indicated a 35 to 40% coal flow under steady-state conditions. In the present study, similar data from several production sections are used to compute the probabilities of different quantities of coal flowing at any given time during a shift on the belt in the submain entries. Depending upon the probabilities of coal flows on belts in sections and submain and main entries, the appropriate haulage units such as belt width, motor horsepower, idlers, etc., and belt speed are selected by a computerized model. After the development of this algorithm, now in progress, results of a case study undertaken at an existing coal mine in the Illinois Coal Basin using this stochastic approach will be compared with those obtained using an existing belt haulage system design approach.

  20. A peer-to-peer resource scheduling approach for photonic grid network based on OBGP

    NASA Astrophysics Data System (ADS)

    Wu, Runze; Ji, Yuefeng

    2005-11-01

    In this paper we present a resource scheduling mechanism for providing dynamic lightpaths to photonic grid network and point out that grid enabled by optical network has huge potential effect on pushing the next optical network applications. Furthermore we investigate photonic grid architecture and control plane based on peer-to-peer is also provided to control optical network communication resources dynamically. We also certificate the idea of extending BGP towards optical network, which is called Optical Border Gateway Protocol used to provide IP-based protocols to control optical network, and gives a dynamic lightpath scheduling approach over multi-wavelength optical network as a new grid service based on OBGP.

  1. An efficient approach of attractor calculation for large-scale Boolean gene regulatory networks.

    PubMed

    He, Qinbin; Xia, Zhile; Lin, Bin

    2016-11-01

    Boolean network models provide an efficient way for studying gene regulatory networks. The main dynamics of a Boolean network is determined by its attractors. Attractor calculation plays a key role for analyzing Boolean gene regulatory networks. An approach of attractor calculation was proposed in this study, which improved the predecessor-based approach. Furthermore, the proposed approach combined with the identification of constant nodes and simplified Boolean networks to accelerate attractor calculation. The proposed algorithm is effective to calculate all attractors for large-scale Boolean gene regulatory networks. If the average degree of the network is not too large, the algorithm can get all attractors of a Boolean network with dozens or even hundreds of nodes.

  2. A new approach to blood flow simulation in vascular networks.

    PubMed

    Tamaddon, Houman; Behnia, Mehrdad; Behnia, Masud; Kritharides, Leonard

    2016-01-01

    A proper analysis of blood flow is contingent upon accurate modelling of the branching pattern and vascular geometry of the network of interest. It is challenging to reconstruct the entire vascular network of any organ experimentally, in particular the pulmonary vasculature, because of its very high number of vessels, complexity of the branching pattern and poor accessibility in vivo. The objective of our research is to develop an innovative approach for the reconstruction of the full pulmonary vascular tree from available morphometric data. Our method consists of the use of morphometric data on those parts of the pulmonary vascular tree that are too small to reconstruct by medical imaging methods. This method is a three-step technique that reconstructs the entire pulmonary arterial tree down to the capillary bed. Vessels greater than 2 mm are reconstructed from direct volume and surface analysis using contrast-enhanced computed tomography. Vessels smaller than 2 mm are reconstructed from available morphometric and distensibility data and rearranged by applying Murray's laws. Implementation of morphometric data to reconstruct the branching pattern and applying Murray's laws to every vessel bifurcation simultaneously leads to an accurate vascular tree reconstruction. The reconstruction algorithm generates full arterial tree topography down to the first capillary bifurcation. Geometry of each order of the vascular tree is generated separately to minimize the construction and simulation time. The node-to-node connectivity along with the diameter and length of every vessel segment is established and order numbers, according to the diameter-defined Strahler system, are assigned. In conclusion, the present model provides a morphological foundation for future analysis of blood flow in the pulmonary circulation.

  3. A geostatistical approach for describing spatial pattern in stream networks

    USGS Publications Warehouse

    Ganio, L.M.; Torgersen, C.E.; Gresswell, R.E.

    2005-01-01

    The shape and configuration of branched networks influence ecological patterns and processes. Recent investigations of network influences in riverine ecology stress the need to quantify spatial structure not only in a two-dimensional plane, but also in networks. An initial step in understanding data from stream networks is discerning non-random patterns along the network. On the other hand, data collected in the network may be spatially autocorrelated and thus not suitable for traditional statistical analyses. Here we provide a method that uses commercially available software to construct an empirical variogram to describe spatial pattern in the relative abundance of coastal cutthroat trout in headwater stream networks. We describe the mathematical and practical considerations involved in calculating a variogram using a non-Euclidean distance metric to incorporate the network pathway structure in the analysis of spatial variability, and use a non-parametric technique to ascertain if the pattern in the empirical variogram is non-random.

  4. Describing spatial pattern in stream networks: A practical approach

    USGS Publications Warehouse

    Ganio, L.M.; Torgersen, C.E.; Gresswell, R.E.

    2005-01-01

    The shape and configuration of branched networks influence ecological patterns and processes. Recent investigations of network influences in riverine ecology stress the need to quantify spatial structure not only in a two-dimensional plane, but also in networks. An initial step in understanding data from stream networks is discerning non-random patterns along the network. On the other hand, data collected in the network may be spatially autocorrelated and thus not suitable for traditional statistical analyses. Here we provide a method that uses commercially available software to construct an empirical variogram to describe spatial pattern in the relative abundance of coastal cutthroat trout in headwater stream networks. We describe the mathematical and practical considerations involved in calculating a variogram using a non-Euclidean distance metric to incorporate the network pathway structure in the analysis of spatial variability, and use a non-parametric technique to ascertain if the pattern in the empirical variogram is non-random.

  5. A Complex Network Approach to Distributional Semantic Models

    PubMed Central

    Utsumi, Akira

    2015-01-01

    A number of studies on network analysis have focused on language networks based on free word association, which reflects human lexical knowledge, and have demonstrated the small-world and scale-free properties in the word association network. Nevertheless, there have been very few attempts at applying network analysis to distributional semantic models, despite the fact that these models have been studied extensively as computational or cognitive models of human lexical knowledge. In this paper, we analyze three network properties, namely, small-world, scale-free, and hierarchical properties, of semantic networks created by distributional semantic models. We demonstrate that the created networks generally exhibit the same properties as word association networks. In particular, we show that the distribution of the number of connections in these networks follows the truncated power law, which is also observed in an association network. This indicates that distributional semantic models can provide a plausible model of lexical knowledge. Additionally, the observed differences in the network properties of various implementations of distributional semantic models are consistently explained or predicted by considering the intrinsic semantic features of a word-context matrix and the functions of matrix weighting and smoothing. Furthermore, to simulate a semantic network with the observed network properties, we propose a new growing network model based on the model of Steyvers and Tenenbaum. The idea underlying the proposed model is that both preferential and random attachments are required to reflect different types of semantic relations in network growth process. We demonstrate that this model provides a better explanation of network behaviors generated by distributional semantic models. PMID:26295940

  6. The Embedded Self: A Social Networks Approach to Identity Theory

    ERIC Educational Resources Information Center

    Walker, Mark H.; Lynn, Freda B.

    2013-01-01

    Despite the fact that key sociological theories of self and identity view the self as fundamentally rooted in networks of interpersonal relationships, empirical research investigating how personal network structure influences the self is conspicuously lacking. To address this gap, we examine links between network structure and role identity…

  7. Automated Network Analysis: A Survey of Different Approaches to the Analysis of Human Communication Relationships.

    ERIC Educational Resources Information Center

    Danowski, James A.

    Noting the tendency for some researchers to reject communication network analysis because the original data might be self-reports, this paper proposes automated network analysis as a means of circumventing such objections. The paper first identifies seven different approaches to defining networks--(1) objective, (2) analyzed, (3) user perceived,…

  8. From Microactions to Macrostructure and Back: A Structurational Approach to the Evolution of Organizational Networks

    ERIC Educational Resources Information Center

    Whitbred, Robert; Fonti, Fabio; Steglich, Christian; Contractor, Noshir

    2011-01-01

    Structuration theory (ST) and network analysis are promising approaches for studying the emergence of communication networks. We offer a model that integrates the conceptual richness of structuration with the precision of relevant concepts and mechanisms offered from communication network research. We leverage methodological advancements (i.e.,…

  9. A Novel Quantitative Approach to Concept Analysis: The Internomological Network

    PubMed Central

    Cook, Paul F.; Larsen, Kai R.; Sakraida, Teresa J.; Pedro, Leli

    2012-01-01

    Background When a construct such as patients’ transition to self-management of chronic illness is studied by researchers across multiple disciplines, the meaning of key terms can become confused. This results from inherent problems in language where a term can have multiple meanings (polysemy) and different words can mean the same thing (synonymy). Objectives To test a novel quantitative method for clarifying the meaning of constructs by examining the similarity of published contexts in which they are used. Method Published terms related to the concept transition to self-management of chronic illness were analyzed using the internomological network (INN), a type of latent semantic analysis to calculate the mathematical relationships between constructs based on the contexts in which researchers use each term. This novel approach was tested by comparing results to those from concept analysis, a best-practice qualitative approach to clarifying meanings of terms. By comparing results of the two methods, the best synonyms of transition to self-management, as well as key antecedent, attribute, and consequence terms, were identified. Results Results from INN analysis were consistent with those from concept analysis. The potential synonyms self-management, transition, and adaptation had the greatest utility. Adaptation was the clearest overall synonym, but had lower cross-disciplinary use. The terms coping and readiness had more circumscribed meanings. The INN analysis confirmed key features of transition to self-management, and suggested related concepts not found by the previous review. Discussion The INN analysis is a promising novel methodology that allows researchers to quantify the semantic relationships between constructs. The method works across disciplinary boundaries, and may help to integrate the diverse literature on self-management of chronic illness. PMID:22592387

  10. Structural link prediction based on ant colony approach in social networks

    NASA Astrophysics Data System (ADS)

    Sherkat, Ehsan; Rahgozar, Maseud; Asadpour, Masoud

    2015-02-01

    As the size and number of online social networks are increasing day by day, social network analysis has become a popular issue in many branches of science. The link prediction is one of the key rolling issues in the analysis of social network's evolution. As the size of social networks is increasing, the necessity for scalable link prediction algorithms is being felt more. The aim of this paper is to introduce a new unsupervised structural link prediction algorithm based on the ant colony approach. Recently, ant colony approach has been used for solving some graph problems. Different kinds of networks are used for testing the proposed approach. In some networks, the proposed scalable algorithm has the best result in comparison to other structural unsupervised link prediction algorithms. In order to evaluate the algorithm results, methods like the top- n precision, area under the Receiver Operating Characteristic (ROC) and Precision-Recall curves are carried out on real-world networks.

  11. Comorbidities of Psoriasis - Exploring the Links by Network Approach

    PubMed Central

    Sundarrajan, Sudharsana; Arumugam, Mohanapriya

    2016-01-01

    Increasing epidemiological studies in patients with psoriasis report the frequent occurrence of one or more associated disorders. Psoriasis is associated with multiple comorbidities including autoimmune disease, neurological disorders, cardiometabolic diseases and inflammatory-bowel disease. An integrated system biology approach is utilized to decipher the molecular alliance of psoriasis with its comorbidities. An unbiased integrative network medicine methodology is adopted for the investigation of diseasome, biological process and pathways of five most common psoriasis associated comorbidities. A significant overlap was observed between genes acting in similar direction in psoriasis and its comorbidities proving the mandatory occurrence of either one of its comorbidities. The biological processes involved in inflammatory response and cell signaling formed a common basis between psoriasis and its associated comorbidities. The pathway analysis revealed the presence of few common pathways such as angiogenesis and few uncommon pathways which includes CCKR signaling map and gonadotrophin-realising hormone receptor pathway overlapping in all the comorbidities. The work shed light on few common genes and pathways that were previously overlooked. These fruitful targets may serve as a starting point for diagnosis and/or treatment of psoriasis comorbidities. The current research provides an evidence for the existence of shared component hypothesis between psoriasis and its comorbidities. PMID:26966903

  12. Extending network approach to language dynamics and human cognition. Comment on "Approaching human language with complex networks" by Cong and Liu

    NASA Astrophysics Data System (ADS)

    Gong, Tao; Shuai, Lan; Wu, Yicheng

    2014-12-01

    By analyzing complex networks constructed from authentic language data, Cong and Liu [1] advance linguistics research into the big data era. The network approach has revealed many intrinsic generalities and crucial differences at both the macro and micro scales between human languages. The axiom behind this research is that language is a complex adaptive system [2]. Although many lexical, semantic, or syntactic features have been discovered by means of analyzing the static and dynamic linguistic networks of world languages, available network-based language studies have not explicitly addressed the evolutionary dynamics of language systems and the correlations between language and human cognition. This commentary aims to provide some insights on how to use the network approach to study these issues.

  13. Nationwide Network of TalentPoints: The Hungarian Approach to Talent Support

    ERIC Educational Resources Information Center

    Csermely, Peter; Rajnai, Gabor; Sulyok, Katalin

    2013-01-01

    In 2006 a novel approach to talent support was promoted by several talent support programmes in Hungary. The new idea was a network approach. The nationwide network of so-called TalentPoints and its framework, the Hungarian Genius Program, gained substantial European Union funding in 2009, and today it is growing rapidly. A novel concept of talent…

  14. A Network Approach for Evaluating Coherence in Multivariate Systems: An Application to Psychophysiological Emotion Data

    ERIC Educational Resources Information Center

    Hsieh, Fushing; Ferrer, Emilio; Chen, Shuchun; Mauss, Iris B.; John, Oliver; Gross, James J.

    2011-01-01

    We present an approach for evaluating coherence in multivariate systems that considers all the variables simultaneously. We operationalize the multivariate system as a network and define coherence as the efficiency with which a signal is transmitted throughout the network. We illustrate this approach with time series data from 15…

  15. Ranking Silent Nodes in Information Networks: A Quantitative Approach and Applications

    NASA Astrophysics Data System (ADS)

    Interdonato, Roberto; Tagarelli, Andrea

    This paper overviews recent research findings concerning a new challenging problem in information networks, namely identifying and ranking silent nodes. We present three case studies which show how silent nodes' behavior maps to different situations in computer networks, online social networks, and online collaboration networks, and we discuss major benefits in identifying and ranking silent nodes in such networks. We also provide an overview of our proposed approach, which relies on a new eigenvector- centrality graph-based ranking method built on a silent-oriented network model.

  16. Baboon (Papio anubis) social complexity--a network approach.

    PubMed

    Lehmann, Julia; Ross, Caroline

    2011-08-01

    Although many studies have analyzed the causes and consequences of social relationships, few studies have explicitly assessed how measures of social relationships are affected by the choice of behaviors used to quantify them. The use of many behaviors to measure social relationships in primates has long been advocated, but it was analytically difficult to implement this framework into primatological work. However, recent advances in social network analysis (SNA) now allow the comparison of multiple networks created from different behaviors. Here we use our database of baboon social behavior (Papio anubis, Gashaka Gumti National Park, Nigeria) to investigate (i) to what extent social networks created from different behaviors overlap, (ii) to what extent individuals occupy similar social positions in these networks and (iii) how sex affects social network position in this population of baboons. We used data on grooming, aggression, displacement, mounting and presenting, which were collected over a 15-month period. We calculated network parameters separately for each behavior. Networks based on displacement, mounting and presenting were very similar to each other, whereas grooming and aggression networks differed both from each other and from mounting, displacement and presenting networks. Overall, individual network positions were strongly affected by sex. Individuals central in one network tended to be central in most other networks as well, whereas other measures such as clustering coefficient were found to vary depending on the behavior analyzed. Thus, our results suggest that a baboon's social environment is best described by a multiplex network based on affiliative, aggressive and sexual behavior. Modern SNA provides a number of useful tools that will help us to better understand animals' social environment. We also discuss potential caveats related to their use.

  17. MIRAGE: a functional genomics-based approach for metabolic network model reconstruction and its application to cyanobacteria networks.

    PubMed

    Vitkin, Edward; Shlomi, Tomer

    2012-01-01

    Genome-scale metabolic network reconstructions are considered a key step in quantifying the genotype-phenotype relationship. We present a novel gap-filling approach, MetabolIc Reconstruction via functionAl GEnomics (MIRAGE), which identifies missing network reactions by integrating metabolic flux analysis and functional genomics data. MIRAGE's performance is demonstrated on the reconstruction of metabolic network models of E. coli and Synechocystis sp. and validated via existing networks for these species. Then, it is applied to reconstruct genome-scale metabolic network models for 36 sequenced cyanobacteria amenable for constraint-based modeling analysis and specifically for metabolic engineering. The reconstructed network models are supplied via standard SBML files. PMID:23194418

  18. A new approach to dynamic fuzzy modeling of genetic regulatory networks.

    PubMed

    Sun, Yonghui; Feng, Gang; Cao, Jinde

    2010-12-01

    In this paper, the dynamic fuzzy modeling approach is applied for modeling genetic regulatory networks from gene expression data. The parameters of the dynamic fuzzy model and the optimal number of fuzzy rules for the fuzzy gene network can be obtained via the proposed modeling approach from the measured gene expression data. One of the main features of the proposed approach is that the prior qualitative knowledge on the network structure can be easily incorporated in the proposed identification algorithm, so that the faster learning convergence of the algorithm can be achieved. Two sets of data, one the synthetic data, and the other the experimental SOS DNA repair network data with structural knowledge, have been used to validate the proposed modeling approach. It is shown that the proposed approach is effective in modeling genetic regulatory networks. PMID:21041161

  19. Mining Functional Modules in Heterogeneous Biological Networks Using Multiplex PageRank Approach

    PubMed Central

    Li, Jun; Zhao, Patrick X.

    2016-01-01

    Identification of functional modules/sub-networks in large-scale biological networks is one of the important research challenges in current bioinformatics and systems biology. Approaches have been developed to identify functional modules in single-class biological networks; however, methods for systematically and interactively mining multiple classes of heterogeneous biological networks are lacking. In this paper, we present a novel algorithm (called mPageRank) that utilizes the Multiplex PageRank approach to mine functional modules from two classes of biological networks. We demonstrate the capabilities of our approach by successfully mining functional biological modules through integrating expression-based gene-gene association networks and protein-protein interaction networks. We first compared the performance of our method with that of other methods using simulated data. We then applied our method to identify the cell division cycle related functional module and plant signaling defense-related functional module in the model plant Arabidopsis thaliana. Our results demonstrated that the mPageRank method is effective for mining sub-networks in both expression-based gene-gene association networks and protein-protein interaction networks, and has the potential to be adapted for the discovery of functional modules/sub-networks in other heterogeneous biological networks. The mPageRank executable program, source code, the datasets and results of the presented two case studies are publicly and freely available at http://plantgrn.noble.org/MPageRank/. PMID:27446133

  20. Mining Functional Modules in Heterogeneous Biological Networks Using Multiplex PageRank Approach.

    PubMed

    Li, Jun; Zhao, Patrick X

    2016-01-01

    Identification of functional modules/sub-networks in large-scale biological networks is one of the important research challenges in current bioinformatics and systems biology. Approaches have been developed to identify functional modules in single-class biological networks; however, methods for systematically and interactively mining multiple classes of heterogeneous biological networks are lacking. In this paper, we present a novel algorithm (called mPageRank) that utilizes the Multiplex PageRank approach to mine functional modules from two classes of biological networks. We demonstrate the capabilities of our approach by successfully mining functional biological modules through integrating expression-based gene-gene association networks and protein-protein interaction networks. We first compared the performance of our method with that of other methods using simulated data. We then applied our method to identify the cell division cycle related functional module and plant signaling defense-related functional module in the model plant Arabidopsis thaliana. Our results demonstrated that the mPageRank method is effective for mining sub-networks in both expression-based gene-gene association networks and protein-protein interaction networks, and has the potential to be adapted for the discovery of functional modules/sub-networks in other heterogeneous biological networks. The mPageRank executable program, source code, the datasets and results of the presented two case studies are publicly and freely available at http://plantgrn.noble.org/MPageRank/.

  1. Mining Functional Modules in Heterogeneous Biological Networks Using Multiplex PageRank Approach.

    PubMed

    Li, Jun; Zhao, Patrick X

    2016-01-01

    Identification of functional modules/sub-networks in large-scale biological networks is one of the important research challenges in current bioinformatics and systems biology. Approaches have been developed to identify functional modules in single-class biological networks; however, methods for systematically and interactively mining multiple classes of heterogeneous biological networks are lacking. In this paper, we present a novel algorithm (called mPageRank) that utilizes the Multiplex PageRank approach to mine functional modules from two classes of biological networks. We demonstrate the capabilities of our approach by successfully mining functional biological modules through integrating expression-based gene-gene association networks and protein-protein interaction networks. We first compared the performance of our method with that of other methods using simulated data. We then applied our method to identify the cell division cycle related functional module and plant signaling defense-related functional module in the model plant Arabidopsis thaliana. Our results demonstrated that the mPageRank method is effective for mining sub-networks in both expression-based gene-gene association networks and protein-protein interaction networks, and has the potential to be adapted for the discovery of functional modules/sub-networks in other heterogeneous biological networks. The mPageRank executable program, source code, the datasets and results of the presented two case studies are publicly and freely available at http://plantgrn.noble.org/MPageRank/. PMID:27446133

  2. Application of Game Theory Approaches in Routing Protocols for Wireless Networks

    NASA Astrophysics Data System (ADS)

    Javidi, Mohammad M.; Aliahmadipour, Laya

    2011-09-01

    An important and essential issue for wireless networks is routing protocol design that is a major technical challenge due to the function of the network. Game theory is a powerful mathematical tool that analyzes the strategic interactions among multiple decision makers and the results of researches show that applied game theory in routing protocol lead to improvement the network performance through reduce overhead and motivates selfish nodes to collaborate in the network. This paper presents a review and comparison for typical representatives of routing protocols designed that applied game theory approaches for various wireless networks such as ad hoc networks, mobile ad hoc networks and sensor networks that all of them lead to improve the network performance.

  3. The Cable and Wireless approach to network synchronization

    NASA Technical Reports Server (NTRS)

    Calvert, Robert D.

    1990-01-01

    The philosophy adopted by Cable and Wireless for the synchronization of its world-wide network is presented. The architectures of some clock systems already deployed and how network synchronization had been implemented at selected locations are discussed. This includes some innovative designs as the network spans both first and third world countries with a combination of North Amercan and European hierarchy equipment. Different parts of the global network are linked together by a combination of terrestrial microwave, submarine cable and satellite technology. The impact of synchronization on Intelsat Intermediate Data Rate (IDR) operation and the restoration of submarine cable systems are addressed.

  4. Harmonic Measuring Approach Based on Quantum Neural Network

    NASA Astrophysics Data System (ADS)

    Li, Yueling; Wu, Xinghua

    Develop a quantum neural network with more effective study and generalized ability. A method proposed to measure the parameters of harmonic is three lays quantum neural networks. With the example of 3rd and 5th harmonic parameters, elaborates the composition of the training method and training sample in the quantum neuron networks. A simulation which trains the quantum neutron network with training samples firstly, then measures untrained samples, is performed by Matlab programs. And the results of the simulation show the validity of the method.

  5. Identification of Important Nodes in Directed Biological Networks: A Network Motif Approach

    PubMed Central

    Wang, Pei; Lü, Jinhu; Yu, Xinghuo

    2014-01-01

    Identification of important nodes in complex networks has attracted an increasing attention over the last decade. Various measures have been proposed to characterize the importance of nodes in complex networks, such as the degree, betweenness and PageRank. Different measures consider different aspects of complex networks. Although there are numerous results reported on undirected complex networks, few results have been reported on directed biological networks. Based on network motifs and principal component analysis (PCA), this paper aims at introducing a new measure to characterize node importance in directed biological networks. Investigations on five real-world biological networks indicate that the proposed method can robustly identify actually important nodes in different networks, such as finding command interneurons, global regulators and non-hub but evolutionary conserved actually important nodes in biological networks. Receiver Operating Characteristic (ROC) curves for the five networks indicate remarkable prediction accuracy of the proposed measure. The proposed index provides an alternative complex network metric. Potential implications of the related investigations include identifying network control and regulation targets, biological networks modeling and analysis, as well as networked medicine. PMID:25170616

  6. Neural network approach for solving the maximal common subgraph problem.

    PubMed

    Shoukry, A; Aboutabl, M

    1996-01-01

    A new formulation of the maximal common subgraph problem (MCSP), that is implemented using a two-stage Hopfield neural network, is given. Relative merits of this proposed formulation, with respect to current neural network-based solutions as well as classical sequential-search-based solutions, are discussed.

  7. A Graph Oriented Approach for Network Forensic Analysis

    ERIC Educational Resources Information Center

    Wang, Wei

    2010-01-01

    Network forensic analysis is a process that analyzes intrusion evidence captured from networked environment to identify suspicious entities and stepwise actions in an attack scenario. Unfortunately, the overwhelming amount and low quality of output from security sensors make it difficult for analysts to obtain a succinct high-level view of complex…

  8. Metabolic Network Discovery by Top-Down and Bottom-Up Approaches and Paths for Reconciliation

    PubMed Central

    Çakır, Tunahan; Khatibipour, Mohammad Jafar

    2014-01-01

    The primary focus in the network-centric analysis of cellular metabolism by systems biology approaches is to identify the active metabolic network for the condition of interest. Two major approaches are available for the discovery of the condition-specific metabolic networks. One approach starts from genome-scale metabolic networks, which cover all possible reactions known to occur in the related organism in a condition-independent manner, and applies methods such as the optimization-based Flux-Balance Analysis to elucidate the active network. The other approach starts from the condition-specific metabolome data, and processes the data with statistical or optimization-based methods to extract information content of the data such that the active network is inferred. These approaches, termed bottom-up and top-down, respectively, are currently employed independently. However, considering that both approaches have the same goal, they can both benefit from each other paving the way for the novel integrative analysis methods of metabolome data- and flux-analysis approaches in the post-genomic era. This study reviews the strengths of constraint-based analysis and network inference methods reported in the metabolic systems biology field; then elaborates on the potential paths to reconcile the two approaches to shed better light on how the metabolism functions. PMID:25520953

  9. Modeling pedestrian's conformity violation behavior: a complex network based approach.

    PubMed

    Zhou, Zhuping; Hu, Qizhou; Wang, Wei

    2014-01-01

    Pedestrian injuries and fatalities present a problem all over the world. Pedestrian conformity violation behaviors, which lead to many pedestrian crashes, are common phenomena at the signalized intersections in China. The concepts and metrics of complex networks are applied to analyze the structural characteristics and evolution rules of pedestrian network about the conformity violation crossings. First, a network of pedestrians crossing the street is established, and the network's degree distributions are analyzed. Then, by using the basic idea of SI model, a spreading model of pedestrian illegal crossing behavior is proposed. Finally, through simulation analysis, pedestrian's illegal crossing behavior trends are obtained in different network structures and different spreading rates. Some conclusions are drawn: as the waiting time increases, more pedestrians will join in the violation crossing once a pedestrian crosses on red firstly. And pedestrian's conformity violation behavior will increase as the spreading rate increases.

  10. Topological Analyses of Protein-Ligand Binding: a Network Approach.

    PubMed

    Costanzi, Stefano

    2016-01-01

    Proteins can be conveniently represented as networks of interacting residues, thus allowing the study of several network parameters that can shed light onto several of their structural and functional aspects. With respect to the binding of ligands, which are central for the function of many proteins, network analysis may constitute a possible route to assist the identification of binding sites. As the bulk of this review illustrates, this has generally been easier for enzymes than for non-enzyme proteins, perhaps due to the different topological nature of the binding sites of the former over those of the latter. The article also illustrates how network representations of binding sites can be used to search PDB structures in order to identify proteins that bind similar molecules and, lastly, how codifying proteins as networks can assist the analysis of the conformational changes consequent to ligand binding.

  11. Introduction to Focus Issue: Quantitative Approaches to Genetic Networks

    NASA Astrophysics Data System (ADS)

    Albert, Réka; Collins, James J.; Glass, Leon

    2013-06-01

    All cells of living organisms contain similar genetic instructions encoded in the organism's DNA. In any particular cell, the control of the expression of each different gene is regulated, in part, by binding of molecular complexes to specific regions of the DNA. The molecular complexes are composed of protein molecules, called transcription factors, combined with various other molecules such as hormones and drugs. Since transcription factors are coded by genes, cellular function is partially determined by genetic networks. Recent research is making large strides to understand both the structure and the function of these networks. Further, the emerging discipline of synthetic biology is engineering novel gene circuits with specific dynamic properties to advance both basic science and potential practical applications. Although there is not yet a universally accepted mathematical framework for studying the properties of genetic networks, the strong analogies between the activation and inhibition of gene expression and electric circuits suggest frameworks based on logical switching circuits. This focus issue provides a selection of papers reflecting current research directions in the quantitative analysis of genetic networks. The work extends from molecular models for the binding of proteins, to realistic detailed models of cellular metabolism. Between these extremes are simplified models in which genetic dynamics are modeled using classical methods of systems engineering, Boolean switching networks, differential equations that are continuous analogues of Boolean switching networks, and differential equations in which control is based on power law functions. The mathematical techniques are applied to study: (i) naturally occurring gene networks in living organisms including: cyanobacteria, Mycoplasma genitalium, fruit flies, immune cells in mammals; (ii) synthetic gene circuits in Escherichia coli and yeast; and (iii) electronic circuits modeling genetic networks

  12. A multi-layer network approach to MEG connectivity analysis.

    PubMed

    Brookes, Matthew J; Tewarie, Prejaas K; Hunt, Benjamin A E; Robson, Sian E; Gascoyne, Lauren E; Liddle, Elizabeth B; Liddle, Peter F; Morris, Peter G

    2016-05-15

    Recent years have shown the critical importance of inter-regional neural network connectivity in supporting healthy brain function. Such connectivity is measurable using neuroimaging techniques such as MEG, however the richness of the electrophysiological signal makes gaining a complete picture challenging. Specifically, connectivity can be calculated as statistical interdependencies between neural oscillations within a large range of different frequency bands. Further, connectivity can be computed between frequency bands. This pan-spectral network hierarchy likely helps to mediate simultaneous formation of multiple brain networks, which support ongoing task demand. However, to date it has been largely overlooked, with many electrophysiological functional connectivity studies treating individual frequency bands in isolation. Here, we combine oscillatory envelope based functional connectivity metrics with a multi-layer network framework in order to derive a more complete picture of connectivity within and between frequencies. We test this methodology using MEG data recorded during a visuomotor task, highlighting simultaneous and transient formation of motor networks in the beta band, visual networks in the gamma band and a beta to gamma interaction. Having tested our method, we use it to demonstrate differences in occipital alpha band connectivity in patients with schizophrenia compared to healthy controls. We further show that these connectivity differences are predictive of the severity of persistent symptoms of the disease, highlighting their clinical relevance. Our findings demonstrate the unique potential of MEG to characterise neural network formation and dissolution. Further, we add weight to the argument that dysconnectivity is a core feature of the neuropathology underlying schizophrenia. PMID:26908313

  13. A multi-layer network approach to MEG connectivity analysis

    PubMed Central

    Brookes, Matthew J.; Tewarie, Prejaas K.; Hunt, Benjamin A.E.; Robson, Sian E.; Gascoyne, Lauren E.; Liddle, Elizabeth B.; Liddle, Peter F.; Morris, Peter G.

    2016-01-01

    Recent years have shown the critical importance of inter-regional neural network connectivity in supporting healthy brain function. Such connectivity is measurable using neuroimaging techniques such as MEG, however the richness of the electrophysiological signal makes gaining a complete picture challenging. Specifically, connectivity can be calculated as statistical interdependencies between neural oscillations within a large range of different frequency bands. Further, connectivity can be computed between frequency bands. This pan-spectral network hierarchy likely helps to mediate simultaneous formation of multiple brain networks, which support ongoing task demand. However, to date it has been largely overlooked, with many electrophysiological functional connectivity studies treating individual frequency bands in isolation. Here, we combine oscillatory envelope based functional connectivity metrics with a multi-layer network framework in order to derive a more complete picture of connectivity within and between frequencies. We test this methodology using MEG data recorded during a visuomotor task, highlighting simultaneous and transient formation of motor networks in the beta band, visual networks in the gamma band and a beta to gamma interaction. Having tested our method, we use it to demonstrate differences in occipital alpha band connectivity in patients with schizophrenia compared to healthy controls. We further show that these connectivity differences are predictive of the severity of persistent symptoms of the disease, highlighting their clinical relevance. Our findings demonstrate the unique potential of MEG to characterise neural network formation and dissolution. Further, we add weight to the argument that dysconnectivity is a core feature of the neuropathology underlying schizophrenia. PMID:26908313

  14. A multi-layer network approach to MEG connectivity analysis.

    PubMed

    Brookes, Matthew J; Tewarie, Prejaas K; Hunt, Benjamin A E; Robson, Sian E; Gascoyne, Lauren E; Liddle, Elizabeth B; Liddle, Peter F; Morris, Peter G

    2016-05-15

    Recent years have shown the critical importance of inter-regional neural network connectivity in supporting healthy brain function. Such connectivity is measurable using neuroimaging techniques such as MEG, however the richness of the electrophysiological signal makes gaining a complete picture challenging. Specifically, connectivity can be calculated as statistical interdependencies between neural oscillations within a large range of different frequency bands. Further, connectivity can be computed between frequency bands. This pan-spectral network hierarchy likely helps to mediate simultaneous formation of multiple brain networks, which support ongoing task demand. However, to date it has been largely overlooked, with many electrophysiological functional connectivity studies treating individual frequency bands in isolation. Here, we combine oscillatory envelope based functional connectivity metrics with a multi-layer network framework in order to derive a more complete picture of connectivity within and between frequencies. We test this methodology using MEG data recorded during a visuomotor task, highlighting simultaneous and transient formation of motor networks in the beta band, visual networks in the gamma band and a beta to gamma interaction. Having tested our method, we use it to demonstrate differences in occipital alpha band connectivity in patients with schizophrenia compared to healthy controls. We further show that these connectivity differences are predictive of the severity of persistent symptoms of the disease, highlighting their clinical relevance. Our findings demonstrate the unique potential of MEG to characterise neural network formation and dissolution. Further, we add weight to the argument that dysconnectivity is a core feature of the neuropathology underlying schizophrenia.

  15. SNMP-SI: A Network Management Tool Based on Slow Intelligence System Approach

    NASA Astrophysics Data System (ADS)

    Colace, Francesco; de Santo, Massimo; Ferrandino, Salvatore

    The last decade has witnessed an intense spread of computer networks that has been further accelerated with the introduction of wireless networks. Simultaneously with, this growth has increased significantly the problems of network management. Especially in small companies, where there is no provision of personnel assigned to these tasks, the management of such networks is often complex and malfunctions can have significant impacts on their businesses. A possible solution is the adoption of Simple Network Management Protocol. Simple Network Management Protocol (SNMP) is a standard protocol used to exchange network management information. It is part of the Transmission Control Protocol/Internet Protocol (TCP/IP) protocol suite. SNMP provides a tool for network administrators to manage network performance, find and solve network problems, and plan for network growth. SNMP has a big disadvantage: its simple design means that the information it deals with is neither detailed nor well organized enough to deal with the expanding modern networking requirements. Over the past years much efforts has been given to improve the lack of Simple Network Management Protocol and new frameworks has been developed: A promising approach involves the use of Ontology. This is the starting point of this paper where a novel approach to the network management based on the use of the Slow Intelligence System methodologies and Ontology based techniques is proposed. Slow Intelligence Systems is a general-purpose systems characterized by being able to improve performance over time through a process involving enumeration, propagation, adaptation, elimination and concentration. Therefore, the proposed approach aims to develop a system able to acquire, according to an SNMP standard, information from the various hosts that are in the managed networks and apply solutions in order to solve problems. To check the feasibility of this model first experimental results in a real scenario are showed.

  16. Human Identification with Electrocardiogram Signals: a Neural Network Approach

    NASA Astrophysics Data System (ADS)

    Wan, Yongbo; Yao, Jianchu

    2009-05-01

    This paper presents a neural network developed to identify human subjects using electrocardiogram (ECG) signals collected from an "in-house" wearable electrocardiogram (ECG) sensor. In this project, noises were first removed from the raw signals with wavelet filters. ECG cycles were then extracted from the filtered signals and decomposed into wavelet coefficient structures. These coefficient structures were used as input vectors to a 3-layer feedforward neural network that generates the identification results. In the current study, 61 datasets collected from 23 subjects were utilized to train the neural network, which thereafter was tested with 15 new datasets from 15 different subjects. All the 15 subjects in the experiment were successfully identified. The testing results demonstrate that the neural network is effective.

  17. The complex networks approach for authorship attribution of books

    NASA Astrophysics Data System (ADS)

    Mehri, Ali; Darooneh, Amir H.; Shariati, Ashrafalsadat

    2012-04-01

    Authorship analysis by means of textual features is an important task in linguistic studies. We employ complex networks theory to tackle this disputed problem. In this work, we focus on some measurable quantities of word co-occurrence network of each book for authorship characterization. Based on the network features, attribution probability is defined for authorship identification. Furthermore, two scaling exponents, q-parameter and α-exponent, are combined to classify personal writing style with acceptable high resolution power. The q-parameter, generally known as the nonextensivity measure, is calculated for degree distribution and the α-exponent comes from a power law relationship between number of links and number of nodes in the co-occurrence network constructed for different books written by each author. The applicability of the presented method is evaluated in an experiment with thirty six books of five Persian litterateurs. Our results show high accuracy rate in authorship attribution.

  18. Inference Approaches to Constructing Covert Social Network Topologies

    NASA Astrophysics Data System (ADS)

    Rhodes, Christopher J.

    Social network analysis techniques are being increasingly employed in counter-terrorism and counter-insurgency operations to develop an understanding of the organisation, capabilities and vulnerabilities of adversary groups. However, the covert nature of these groups makes the construction of social network topologies very challenging. An additional constraint is that such constructions often have to be made on a fast time-scale using data that has a limited shelf-life. Consequently, developing effective processes for constructing network representations from incomplete and limited data of variable quality is a topic of much current interest. Here we show how Bayesian inference techniques can be used to construct candidate network topologies and predict missing links in two different analysis scenarios. The techniques are illustrated by application to data from open-source publications.

  19. Phylogeny of metabolic networks: a spectral graph theoretical approach.

    PubMed

    Deyasi, Krishanu; Banerjee, Anirban; Deb, Bony

    2015-10-01

    Many methods have been developed for finding the commonalities between different organisms in order to study their phylogeny. The structure of metabolic networks also reveals valuable insights into metabolic capacity of species as well as into the habitats where they have evolved. We constructed metabolic networks of 79 fully sequenced organisms and compared their architectures. We used spectral density of normalized Laplacian matrix for comparing the structure of networks. The eigenvalues of this matrix reflect not only the global architecture of a network but also the local topologies that are produced by different graph evolutionary processes like motif duplication or joining. A divergence measure on spectral densities is used to quantify the distances between various metabolic networks, and a split network is constructed to analyse the phylogeny from these distances. In our analysis, we focused on the species that belong to different classes, but appear more related to each other in the phylogeny. We tried to explore whether they have evolved under similar environmental conditions or have similar life histories. With this focus, we have obtained interesting insights into the phylogenetic commonality between different organisms. PMID:26564980

  20. Phylogeny of metabolic networks: a spectral graph theoretical approach.

    PubMed

    Deyasi, Krishanu; Banerjee, Anirban; Deb, Bony

    2015-10-01

    Many methods have been developed for finding the commonalities between different organisms in order to study their phylogeny. The structure of metabolic networks also reveals valuable insights into metabolic capacity of species as well as into the habitats where they have evolved. We constructed metabolic networks of 79 fully sequenced organisms and compared their architectures. We used spectral density of normalized Laplacian matrix for comparing the structure of networks. The eigenvalues of this matrix reflect not only the global architecture of a network but also the local topologies that are produced by different graph evolutionary processes like motif duplication or joining. A divergence measure on spectral densities is used to quantify the distances between various metabolic networks, and a split network is constructed to analyse the phylogeny from these distances. In our analysis, we focused on the species that belong to different classes, but appear more related to each other in the phylogeny. We tried to explore whether they have evolved under similar environmental conditions or have similar life histories. With this focus, we have obtained interesting insights into the phylogenetic commonality between different organisms.

  1. Face recognition: a convolutional neural-network approach.

    PubMed

    Lawrence, S; Giles, C L; Tsoi, A C; Back, A D

    1997-01-01

    We present a hybrid neural-network for human face recognition which compares favourably with other methods. The system combines local image sampling, a self-organizing map (SOM) neural network, and a convolutional neural network. The SOM provides a quantization of the image samples into a topological space where inputs that are nearby in the original space are also nearby in the output space, thereby providing dimensionality reduction and invariance to minor changes in the image sample, and the convolutional neural network provides partial invariance to translation, rotation, scale, and deformation. The convolutional network extracts successively larger features in a hierarchical set of layers. We present results using the Karhunen-Loeve transform in place of the SOM, and a multilayer perceptron (MLP) in place of the convolutional network for comparison. We use a database of 400 images of 40 individuals which contains quite a high degree of variability in expression, pose, and facial details. We analyze the computational complexity and discuss how new classes could be added to the trained recognizer.

  2. An adaptive neural swarm approach for intrusion defense in ad hoc networks

    NASA Astrophysics Data System (ADS)

    Cannady, James

    2011-06-01

    Wireless sensor networks (WSN) and mobile ad hoc networks (MANET) are being increasingly deployed in critical applications due to the flexibility and extensibility of the technology. While these networks possess numerous advantages over traditional wireless systems in dynamic environments they are still vulnerable to many of the same types of host-based and distributed attacks common to those systems. Unfortunately, the limited power and bandwidth available in WSNs and MANETs, combined with the dynamic connectivity that is a defining characteristic of the technology, makes it extremely difficult to utilize traditional intrusion detection techniques. This paper describes an approach to accurately and efficiently detect potentially damaging activity in WSNs and MANETs. It enables the network as a whole to recognize attacks, anomalies, and potential vulnerabilities in a distributive manner that reflects the autonomic processes of biological systems. Each component of the network recognizes activity in its local environment and then contributes to the overall situational awareness of the entire system. The approach utilizes agent-based swarm intelligence to adaptively identify potential data sources on each node and on adjacent nodes throughout the network. The swarm agents then self-organize into modular neural networks that utilize a reinforcement learning algorithm to identify relevant behavior patterns in the data without supervision. Once the modular neural networks have established interconnectivity both locally and with neighboring nodes the analysis of events within the network can be conducted collectively in real-time. The approach has been shown to be extremely effective in identifying distributed network attacks.

  3. Community-level demographic consequences of urbanization: an ecological network approach.

    PubMed

    Rodewald, Amanda D; Rohr, Rudolf P; Fortuna, Miguel A; Bascompte, Jordi

    2014-11-01

    Ecological networks are known to influence ecosystem attributes, but we poorly understand how interspecific network structure affect population demography of multiple species, particularly for vertebrates. Establishing the link between network structure and demography is at the crux of being able to use networks to understand population dynamics and to inform conservation. We addressed the critical but unanswered question, does network structure explain demographic consequences of urbanization? We studied 141 ecological networks representing interactions between plants and nesting birds in forests across an urbanization gradient in Ohio, USA, from 2001 to 2011. Nest predators were identified by video-recording nests and surveyed from 2004 to 2011. As landscapes urbanized, bird-plant networks were more nested, less compartmentalized and dominated by strong interactions between a few species (i.e. low evenness). Evenness of interaction strengths promoted avian nest survival, and evenness explained demography better than urbanization, level of invasion, numbers of predators or other qualitative network metrics. Highly uneven networks had approximately half the nesting success as the most even networks. Thus, nest survival reflected how urbanization altered species interactions, particularly with respect to how nest placement affected search efficiency of predators. The demographic effects of urbanization were not direct, but were filtered through bird-plant networks. This study illustrates how network structure can influence demography at the community level and further, that knowledge of species interactions and a network approach may be requisite to understanding demographic responses to environmental change.

  4. Computational approach in estimating the need of ditch network maintenance

    NASA Astrophysics Data System (ADS)

    Lauren, Ari; Hökkä, Hannu; Launiainen, Samuli; Palviainen, Marjo; Repo, Tapani; Leena, Finer; Piirainen, Sirpa

    2015-04-01

    Ditch network maintenance (DNM), implemented annually in 70 000 ha area in Finland, is the most controversial of all forest management practices. Nationwide, it is estimated to increase the forest growth by 1…3 million m3 per year, but simultaneously to cause 65 000 tons export of suspended solids and 71 tons of phosphorus (P) to water courses. A systematic approach that allows simultaneous quantification of the positive and negative effects of DNM is required. Excess water in the rooting zone slows the gas exchange and decreases biological activity interfering with the forest growth in boreal forested peatlands. DNM is needed when: 1) the excess water in the rooting zone restricts the forest growth before the DNM, and 2) after the DNM the growth restriction ceases or decreases, and 3) the benefits of DNM are greater than the caused adverse effects. Aeration in the rooting zone can be used as a drainage criterion. Aeration is affected by several factors such as meteorological conditions, tree stand properties, hydraulic properties of peat, ditch depth, and ditch spacing. We developed a 2-dimensional DNM simulator that allows the user to adjust these factors and to evaluate their effect on the soil aeration at different distance from the drainage ditch. DNM simulator computes hydrological processes and soil aeration along a water flowpath between two ditches. Applying daily time step it calculates evapotranspiration, snow accumulation and melt, infiltration, soil water storage, ground water level, soil water content, air-filled porosity and runoff. The model performance in hydrology has been tested against independent high frequency field monitoring data. Soil aeration at different distance from the ditch is computed under steady-state assumption using an empirical oxygen consumption model, simulated air-filled porosity, and diffusion coefficient at different depths in soil. Aeration is adequate and forest growth rate is not limited by poor aeration if the

  5. Social network approaches to recruitment, HIV prevention, medical care, and medication adherence

    PubMed Central

    Latkin, Carl A.; Davey-Rothwell, Melissa A.; Knowlton, Amy R.; Alexander, Kamila A.; Williams, Chyvette T.; Boodram, Basmattee

    2013-01-01

    This article reviews current issues and advancements in social network approaches to HIV prevention and care. Social network analysis can provide a method to understand health disparities in HIV rates and treatment access and outcomes. Social network analysis is a value tool to link social structural factors to individual behaviors. Social networks provide an avenue for low cost and sustainable HIV prevention interventions that can be adapted and translated into diverse populations. Social networks can be utilized as a viable approach to recruitment for HIV testing and counseling, HIV prevention interventions, and optimizing HIV medical care and medication adherence. Social network interventions may be face-to-face or through social media. Key issues in designing social network interventions are contamination due to social diffusion, network stability, density, and the choice and training of network members. There are also ethical issues involved in the development and implementation of social network interventions. Social network analyses can also be used to understand HIV transmission dynamics. PMID:23673888

  6. An automated approach to network features of protein structure ensembles.

    PubMed

    Bhattacharyya, Moitrayee; Bhat, Chanda R; Vishveshwara, Saraswathi

    2013-10-01

    Network theory applied to protein structures provides insights into numerous problems of biological relevance. The explosion in structural data available from PDB and simulations establishes a need to introduce a standalone-efficient program that assembles network concepts/parameters under one hood in an automated manner. Herein, we discuss the development/application of an exhaustive, user-friendly, standalone program package named PSN-Ensemble, which can handle structural ensembles generated through molecular dynamics (MD) simulation/NMR studies or from multiple X-ray structures. The novelty in network construction lies in the explicit consideration of side-chain interactions among amino acids. The program evaluates network parameters dealing with topological organization and long-range allosteric communication. The introduction of a flexible weighing scheme in terms of residue pairwise cross-correlation/interaction energy in PSN-Ensemble brings in dynamical/chemical knowledge into the network representation. Also, the results are mapped on a graphical display of the structure, allowing an easy access of network analysis to a general biological community. The potential of PSN-Ensemble toward examining structural ensemble is exemplified using MD trajectories of an ubiquitin-conjugating enzyme (UbcH5b). Furthermore, insights derived from network parameters evaluated using PSN-Ensemble for single-static structures of active/inactive states of β2-adrenergic receptor and the ternary tRNA complexes of tyrosyl tRNA synthetases (from organisms across kingdoms) are discussed. PSN-Ensemble is freely available from http://vishgraph.mbu.iisc.ernet.in/PSN-Ensemble/psn_index.html.

  7. GPM ground validation via commercial cellular networks: an exploratory approach

    NASA Astrophysics Data System (ADS)

    Rios Gaona, Manuel Felipe; Overeem, Aart; Leijnse, Hidde; Brasjen, Noud; Uijlenhoet, Remko

    2016-04-01

    The suitability of commercial microwave link networks for ground validation of GPM (Global Precipitation Measurement) data is evaluated here. Two state-of-the-art rainfall products are compared over the land surface of the Netherlands for a period of 7 months, i.e., rainfall maps from commercial cellular communication networks and Integrated Multi-satellite Retrievals for GPM (IMERG). Commercial microwave link networks are nowadays the core component in telecommunications worldwide. Rainfall rates can be retrieved from measurements of attenuation between transmitting and receiving antennas. If adequately set up, these networks enable rainfall monitoring tens of meters above the ground at high spatiotemporal resolutions (temporal sampling of seconds to tens of minutes, and spatial sampling of hundreds of meters to tens of kilometers). The GPM mission is the successor of TRMM (Tropical Rainfall Measurement Mission). For two years now, IMERG offers rainfall estimates across the globe (180°W - 180°E and 60°N - 60°S) at spatiotemporal resolutions of 0.1° x 0.1° every 30 min. These two data sets are compared against a Dutch gauge-adjusted radar data set, considered to be the ground truth given its accuracy, spatiotemporal resolution and availability. The suitability of microwave link networks in satellite rainfall evaluation is of special interest, given the independent character of this technique, its high spatiotemporal resolutions and availability. These are valuable assets for water management and modeling of floods, landslides, and weather extremes; especially in places where rain gauge networks are scarce or poorly maintained, or where weather radar networks are too expensive to acquire and/or maintain.

  8. Unified Approach to Modeling and Simulation of Space Communication Networks and Systems

    NASA Technical Reports Server (NTRS)

    Barritt, Brian; Bhasin, Kul; Eddy, Wesley; Matthews, Seth

    2010-01-01

    Network simulator software tools are often used to model the behaviors and interactions of applications, protocols, packets, and data links in terrestrial communication networks. Other software tools that model the physics, orbital dynamics, and RF characteristics of space systems have matured to allow for rapid, detailed analysis of space communication links. However, the absence of a unified toolset that integrates the two modeling approaches has encumbered the systems engineers tasked with the design, architecture, and analysis of complex space communication networks and systems. This paper presents the unified approach and describes the motivation, challenges, and our solution - the customization of the network simulator to integrate with astronautical analysis software tools for high-fidelity end-to-end simulation. Keywords space; communication; systems; networking; simulation; modeling; QualNet; STK; integration; space networks

  9. A NETWORK-THEORETICAL APPROACH TO UNDERSTANDING INTERSTELLAR CHEMISTRY

    SciTech Connect

    Jolley, Craig C.; Douglas, Trevor

    2010-10-20

    Recent years have seen dramatic advances in computational models of chemical processes in the interstellar medium (ISM). Typically, these models have been used to calculate changes in chemical abundances with time; the calculated abundances can then be compared with chemical abundances derived from observations. In this study, the output from an astrochemical simulation has been used to generate directed graphs with weighted edges; these have been analyzed with the tools of network theory to uncover whole-network properties of reaction systems in dark molecular clouds. The results allow the development of a model in which global network properties can be rationalized in terms of the basic physical properties of the reaction system. The ISM network exhibits an exponential degree distribution, which is likely to be a generic feature of chemical networks involving a broad range of reaction rate constants. While species abundances span several orders of magnitude, the formation and destruction rates for most species are approximately balanced-departures from this rule indicate species (such as CO) that play a critical role in shaping the dynamics of the system. Future theoretical or observational studies focusing on individual molecular species will be able to situate them in terms of their role in the complete system or quantify the degree to which they deviate from the typical system behavior.

  10. Efficient Learning Strategy of Chinese Characters Based on Network Approach

    PubMed Central

    Yan, Xiaoyong; Fan, Ying; Di, Zengru; Havlin, Shlomo; Wu, Jinshan

    2013-01-01

    We develop an efficient learning strategy of Chinese characters based on the network of the hierarchical structural relations between Chinese characters. A more efficient strategy is that of learning the same number of useful Chinese characters in less effort or time. We construct a node-weighted network of Chinese characters, where character usage frequencies are used as node weights. Using this hierarchical node-weighted network, we propose a new learning method, the distributed node weight (DNW) strategy, which is based on a new measure of nodes' importance that considers both the weight of the nodes and its location in the network hierarchical structure. Chinese character learning strategies, particularly their learning order, are analyzed as dynamical processes over the network. We compare the efficiency of three theoretical learning methods and two commonly used methods from mainstream Chinese textbooks, one for Chinese elementary school students and the other for students learning Chinese as a second language. We find that the DNW method significantly outperforms the others, implying that the efficiency of current learning methods of major textbooks can be greatly improved. PMID:23990887

  11. Research into alternative network approaches for space operations

    NASA Technical Reports Server (NTRS)

    Kusmanoff, Antone L.; Barton, Timothy J.

    1990-01-01

    The main goal is to resolve the interoperability problem of applications employing DOD TCP/IP (Department of Defence Transmission Control Protocol/Internet Protocol) family of protocols on a CCITT/ISO based network. The objective is to allow them to communicate over the CCITT/ISO protocol GPLAN (General Purpose Local Area Network) network without modification to the user's application programs. There were two primary assumptions associated with the solution that was actually realized. The first is that the solution had to allow for future movement to the exclusive use of the CCITT/ISO standards. The second is that the solution had to be software transparent to the currently installed TCP/IP and CCITT/ISO user application programs.

  12. Bayesian approach to neural-network modeling with input uncertainty.

    PubMed

    Wright, W A

    1999-01-01

    It is generally assumed when using Bayesian inference methods for neural networks that the input data contains no noise or corruption. For real-world (errors in variable) problems this is clearly an unsafe assumption. This paper presents a Bayesian neural-network framework which allows for input noise provided that some model of the noise process exists. In the limit where the noise process is small and symmetric it is shown, using the Laplace approximation, that this method gives an additional term to the usual Bayesian error bar which depends on the variance of the input noise process. Further by treating the true (noiseless) input as a hidden variable and sampling this jointly with the network's weights, using a Markov chain Monte Carlo method, it is demonstrated that it is possible to infer the regression over the noiseless input.

  13. An entropy-driven matrix completion (E-MC) approach to complex network mapping

    NASA Astrophysics Data System (ADS)

    Koochakzadeh, Ali; Pal, Piya

    2016-05-01

    Mapping the topology of a complex network in a resource-efficient manner is a challenging problem with applications in internet mapping, social network inference, and so forth. We propose a new entropy driven algorithm leveraging ideas from matrix completion, to map the network using monitors (or sensors) which, when placed on judiciously selected nodes, are capable of discovering their immediate neighbors. The main challenge is to maximize the portion of discovered network using only a limited number of available monitors. To this end, (i) a new measure of entropy or uncertainty is associated with each node, in terms of the currently discovered edges incident on that node, and (ii) a greedy algorithm is developed to select a candidate node for monitor placement based on its entropy. Utilizing the fact that many complex networks of interest (such as social networks), have a low-rank adjacency matrix, a matrix completion algorithm, namely 1-bit matrix completion, is combined with the greedy algorithm to further boost its performance. The low rank property of the network adjacency matrix can be used to extrapolate a portion of missing edges, and consequently update the node entropies, so as to efficiently guide the network discovery algorithm towards placing monitors on the nodes that can turn out to be more informative. Simulations performed on a variety of real world networks such as social networks and peer networks demonstrate the superior performance of the matrix-completion guided approach in discovering the network topology.

  14. Variable sampling approach to mitigate instability in networked control systems with delays.

    PubMed

    López-Echeverría, Daniel; Magaña, Mario E

    2012-01-01

    This paper analyzes a new alternative approach to compensate for the effects of time delays on a dynamic networked control system (NCS). The approach is based on the use of time-delay-predicted values as the sampling times of the NCS. We use a one-step-ahead prediction algorithm based on an adaptive time delay neural network. The application of pole placement and linear quadratic regulator methods to compute the feedback gains taking into account the estimated time delays is investigated.

  15. Constrained off-line synthesis approach of model predictive control for networked control systems with network-induced delays.

    PubMed

    Tang, Xiaoming; Qu, Hongchun; Wang, Ping; Zhao, Meng

    2015-03-01

    This paper investigates the off-line synthesis approach of model predictive control (MPC) for a class of networked control systems (NCSs) with network-induced delays. A new augmented model which can be readily applied to time-varying control law, is proposed to describe the NCS where bounded deterministic network-induced delays may occur in both sensor to controller (S-A) and controller to actuator (C-A) links. Based on this augmented model, a sufficient condition of the closed-loop stability is derived by applying the Lyapunov method. The off-line synthesis approach of model predictive control is addressed using the stability results of the system, which explicitly considers the satisfaction of input and state constraints. Numerical example is given to illustrate the effectiveness of the proposed method.

  16. Biology Inspired Approach for Communal Behavior in Sensor Networks

    NASA Technical Reports Server (NTRS)

    Jones, Kennie H.; Lodding, Kenneth N.; Olariu, Stephan; Wilson, Larry; Xin, Chunsheng

    2006-01-01

    Research in wireless sensor network technology has exploded in the last decade. Promises of complex and ubiquitous control of the physical environment by these networks open avenues for new kinds of science and business. Due to the small size and low cost of sensor devices, visionaries promise systems enabled by deployment of massive numbers of sensors working in concert. Although the reduction in size has been phenomenal it results in severe limitations on the computing, communicating, and power capabilities of these devices. Under these constraints, research efforts have concentrated on developing techniques for performing relatively simple tasks with minimal energy expense assuming some form of centralized control. Unfortunately, centralized control does not scale to massive size networks and execution of simple tasks in sparsely populated networks will not lead to the sophisticated applications predicted. These must be enabled by new techniques dependent on local and autonomous cooperation between sensors to effect global functions. As a step in that direction, in this work we detail a technique whereby a large population of sensors can attain a global goal using only local information and by making only local decisions without any form of centralized control.

  17. Artificial Neural Networks: A New Approach to Predicting Application Behavior.

    ERIC Educational Resources Information Center

    Gonzalez, Julie M. Byers; DesJardins, Stephen L.

    2002-01-01

    Applied the technique of artificial neural networks to predict which students were likely to apply to one research university. Compared the results to the traditional analysis tool, logistic regression modeling. Found that the addition of artificial intelligence models was a useful new tool for predicting student application behavior. (EV)

  18. Autoshaping and Automaintenance: A Neural-Network Approach

    ERIC Educational Resources Information Center

    Burgos, Jose E.

    2007-01-01

    This article presents an interpretation of autoshaping, and positive and negative automaintenance, based on a neural-network model. The model makes no distinction between operant and respondent learning mechanisms, and takes into account knowledge of hippocampal and dopaminergic systems. Four simulations were run, each one using an "A-B-A" design…

  19. Neural Networks Based Approach to Enhance Space Hardware Reliability

    NASA Technical Reports Server (NTRS)

    Zebulum, Ricardo S.; Thakoor, Anilkumar; Lu, Thomas; Franco, Lauro; Lin, Tsung Han; McClure, S. S.

    2011-01-01

    This paper demonstrates the use of Neural Networks as a device modeling tool to increase the reliability analysis accuracy of circuits targeted for space applications. The paper tackles a number of case studies of relevance to the design of Flight hardware. The results show that the proposed technique generates more accurate models than the ones regularly used to model circuits.

  20. Neural Network Approach to Locating Cryptography in Object Code

    SciTech Connect

    Jason L. Wright; Milos Manic

    2009-09-01

    Finding and identifying cryptography is a growing concern in the malware analysis community. In this paper, artificial neural networks are used to classify functional blocks from a disassembled program as being either cryptography related or not. The resulting system, referred to as NNLC (Neural Net for Locating Cryptography) is presented and results of applying this system to various libraries are described.

  1. Multi-loop networked process control: a synchronized approach.

    PubMed

    Das, M; Ghosh, R; Goswami, B; Chandra, A K; Balasubramanian, R; Luksch, P; Gupta, A

    2009-01-01

    Modern day process control uses digital controllers which are based on the principle of distributed rather than centralized control. Distributing controllers, sensors and actuators across a plant entails considerable wiring which can be reduced substantially by integrating the components of a control loop over a network. The other advantages include greater flexibility and higher reliability with lower hardware redundancy. The controllers and sensors are on a network and can take over the function of a failed component automatically, without the need of manual reconfiguration, thus eliminating the need of having a redundant component for each and every component. Though elaborate techniques have been developed for Single Input Single Output (SISO) systems, the major challenge lies in extending these ideas to control a practical process plant where de-centralized control is actually achieved through control of individual SISO control loops derived through de-coupling of the original system. Multiple loops increase network load and hence the sampling times associated with the control loops and makes synchronization difficult. This paper presents a methodology by which network based process control can be applied to practical process plants, with a simple direct synchronization mechanism. PMID:19028386

  2. Analysing Interactions in a Teacher Network Forum: A Sociometric Approach

    ERIC Educational Resources Information Center

    Lisboa, Eliana Santana; Coutinho, Clara Pereira

    2013-01-01

    This article presents the sociometric analysis of the interactions in a forum of a social network created for the professional development of Portuguese-speaking teachers. The main goal of the forum, which was titled Stricto Sensu, was to discuss the educational value of programmes that joined the distance learning model in Brazil. The empirical…

  3. Forecasting ENSO events: A neural network-extended EOF approach

    SciTech Connect

    Tangang, F.T.; Tang, B.; Monahan, A.H.; Hsieh, W.W.

    1998-01-01

    The authors constructed neural network models to forecast the sea surface temperature anomalies (SSTA) for three regions: Nino 4. Nino 3.5, and Nino 3, representing the western-central, the central, and the eastern-central parts of the equatorial Pacific Ocean, respectively. The inputs were the extended empirical orthogonal functions (EEOF) of the sea level pressure (SLP) field that covered the tropical Indian and Pacific Oceans and evolved for a duration of 1 yr. The EEOFs greatly reduced the size of the neural networks from those of the authors` earlier papers using EOFs. The Nino 4 region appeared to be the best forecasted region, with useful skills up to a year lead time for the 1982-93 forecast period. By network pruning analysis and spectral analysis, four important inputs were identified: modes 1, 2, and 6 of the SLP EEOFs and the SSTA persistence. Mode 1 characterized the low-frequency oscillation (LFO, with 4-5-yr period), and was seen as the typical ENSO signal, while mode 2, with a period of 2-5 yr, characterized the quasi-biennial oscillation (QBO) plus the LFO. Mode 6 was dominated by decadal and interdecadal variations. Thus, forecasting ENSO required information from the QBO, and the decadal-interdecadal oscillations. The nonlinearity of the networks tended to increase with lead time and to become stronger for the eastern regions of the equatorial Pacific Ocean. 35 refs., 14 figs., 4 tabs.

  4. Small "p" Publishing: A Networked Blogging Approach to Academic Discourse

    ERIC Educational Resources Information Center

    Martin, Julia W.; Hughes, Brian

    2012-01-01

    This article highlights a middle ground for academic publishing between formal peer-reviewed journals and informal blogging that we call "Small "p" Publishing." Having implemented and tested a publishing network that illustrates this middle ground, we describe its unique contributions to scholars and learning communities. Three features that…

  5. A Cultural Approach to Networked-Based Mobile Education

    ERIC Educational Resources Information Center

    Koskimaa, Raine; Lehtonen, Miika; Heinonen, Ulla; Ruokamo, Heli; Tissari, Varpu; Vahtivuori-Hanninen, Sanna; Tella, Seppo

    2007-01-01

    This paper discusses cultural conditions for networked-based mobile education. In our paper, we demonstrate how an Integrated Meta-Model that we have been developing in our MOMENTS project, i.e. Models and Methods for Future Knowledge Construction: Interdisciplinary Implementations with Mobile Technologies, can be used as a heuristic tool for…

  6. Nursing Home Care Quality: Insights from a Bayesian Network Approach

    ERIC Educational Resources Information Center

    Goodson, Justin; Jang, Wooseung; Rantz, Marilyn

    2008-01-01

    Purpose: The purpose of this research is twofold. The first purpose is to utilize a new methodology (Bayesian networks) for aggregating various quality indicators to measure the overall quality of care in nursing homes. The second is to provide new insight into the relationships that exist among various measures of quality and how such measures…

  7. A network-based approach to classify the three domains of life

    PubMed Central

    2011-01-01

    Background Identifying group-specific characteristics in metabolic networks can provide better insight into evolutionary developments. Here, we present an approach to classify the three domains of life using topological information about the underlying metabolic networks. These networks have been shown to share domain-independent structural similarities, which pose a special challenge for our endeavour. We quantify specific structural information by using topological network descriptors to classify this set of metabolic networks. Such measures quantify the structural complexity of the underlying networks. In this study, we use such measures to capture domain-specific structural features of the metabolic networks to classify the data set. So far, it has been a challenging undertaking to examine what kind of structural complexity such measures do detect. In this paper, we apply two groups of topological network descriptors to metabolic networks and evaluate their classification performance. Moreover, we combine the two groups to perform a feature selection to estimate the structural features with the highest classification ability in order to optimize the classification performance. Results By combining the two groups, we can identify seven topological network descriptors that show a group-specific characteristic by ANOVA. A multivariate analysis using feature selection and supervised machine learning leads to a reasonable classification performance with a weighted F-score of 83.7% and an accuracy of 83.9%. We further demonstrate that our approach outperforms alternative methods. Also, our results reveal that entropy-based descriptors show the highest classification ability for this set of networks. Conclusions Our results show that these particular topological network descriptors are able to capture domain-specific structural characteristics for classifying metabolic networks between the three domains of life. PMID:21995640

  8. Internet-Based Approaches to Building Stakeholder Networks for Conservation and Natural Resource Management.

    PubMed

    Kreakie, B J; Hychka, K C; Belaire, J A; Minor, E; Walker, H A

    2016-02-01

    Social network analysis (SNA) is based on a conceptual network representation of social interactions and is an invaluable tool for conservation professionals to increase collaboration, improve information flow, and increase efficiency. We present two approaches to constructing internet-based social networks, and use an existing traditional (survey-based) case study to illustrate in a familiar context the deviations in methods and results. Internet-based approaches to SNA offer a means to overcome institutional hurdles to conducting survey-based SNA, provide unique insight into an institution's web presences, allow for easy snowballing (iterative process that incorporates new nodes in the network), and afford monitoring of social networks through time. The internet-based approaches differ in link definition: hyperlink is based on links on a website that redirect to a different website and relatedness links are based on a Google's "relatedness" operator that identifies pages "similar" to a URL. All networks were initiated with the same start nodes [members of a conservation alliance for the Calumet region around Chicago (n = 130)], but the resulting networks vary drastically from one another. Interpretation of the resulting networks is highly contingent upon how the links were defined.

  9. Internet-Based Approaches to Building Stakeholder Networks for Conservation and Natural Resource Management.

    PubMed

    Kreakie, B J; Hychka, K C; Belaire, J A; Minor, E; Walker, H A

    2016-02-01

    Social network analysis (SNA) is based on a conceptual network representation of social interactions and is an invaluable tool for conservation professionals to increase collaboration, improve information flow, and increase efficiency. We present two approaches to constructing internet-based social networks, and use an existing traditional (survey-based) case study to illustrate in a familiar context the deviations in methods and results. Internet-based approaches to SNA offer a means to overcome institutional hurdles to conducting survey-based SNA, provide unique insight into an institution's web presences, allow for easy snowballing (iterative process that incorporates new nodes in the network), and afford monitoring of social networks through time. The internet-based approaches differ in link definition: hyperlink is based on links on a website that redirect to a different website and relatedness links are based on a Google's "relatedness" operator that identifies pages "similar" to a URL. All networks were initiated with the same start nodes [members of a conservation alliance for the Calumet region around Chicago (n = 130)], but the resulting networks vary drastically from one another. Interpretation of the resulting networks is highly contingent upon how the links were defined. PMID:26503113

  10. Internet-Based Approaches to Building Stakeholder Networks for Conservation and Natural Resource Management

    NASA Astrophysics Data System (ADS)

    Kreakie, B. J.; Hychka, K. C.; Belaire, J. A.; Minor, E.; Walker, H. A.

    2016-02-01

    Social network analysis (SNA) is based on a conceptual network representation of social interactions and is an invaluable tool for conservation professionals to increase collaboration, improve information flow, and increase efficiency. We present two approaches to constructing internet-based social networks, and use an existing traditional (survey-based) case study to illustrate in a familiar context the deviations in methods and results. Internet-based approaches to SNA offer a means to overcome institutional hurdles to conducting survey-based SNA, provide unique insight into an institution's web presences, allow for easy snowballing (iterative process that incorporates new nodes in the network), and afford monitoring of social networks through time. The internet-based approaches differ in link definition: hyperlink is based on links on a website that redirect to a different website and relatedness links are based on a Google's "relatedness" operator that identifies pages "similar" to a URL. All networks were initiated with the same start nodes [members of a conservation alliance for the Calumet region around Chicago ( n = 130)], but the resulting networks vary drastically from one another. Interpretation of the resulting networks is highly contingent upon how the links were defined.

  11. A network approach in analysis of the matching hypothesis

    NASA Astrophysics Data System (ADS)

    Jia, Tao; Spivey, Robert; Korniss, Gyorgy; Szymanski, Boleslaw

    2014-03-01

    The matching hypothesis in social psychology claimed that people are more likely to form a committed relationship with someone who is equally attractive. This phenomenon can be well interpreted by the principle of homophily that people are apt to get in touch with others similar to them. Yet, social experiments indicate that people in general tend to prefer more attractive individuals regardless of their own attractiveness. Here study the stochastic matching process for different underlying networks and different attractiveness distributions. We showed that the correlation of attractiveness within couples could purely due to the limited number of acquaintance each person has and such correlation decreases as the network becomes more sparse. We also analyzed the effect of the degree distribution and the attractiveness on the number of individuals that can not find their partners. This work is supported by ARL NS-CTA, ARO, and ONR.

  12. Network based approaches reveal clustering in protein point patterns

    NASA Astrophysics Data System (ADS)

    Parker, Joshua; Barr, Valarie; Aldridge, Joshua; Samelson, Lawrence E.; Losert, Wolfgang

    2014-03-01

    Recent advances in super-resolution imaging have allowed for the sub-diffraction measurement of the spatial location of proteins on the surfaces of T-cells. The challenge is to connect these complex point patterns to the internal processes and interactions, both protein-protein and protein-membrane. We begin analyzing these patterns by forming a geometric network amongst the proteins and looking at network measures, such the degree distribution. This allows us to compare experimentally observed patterns to models. Specifically, we find that the experimental patterns differ from heterogeneous Poisson processes, highlighting an internal clustering structure. Further work will be to compare our results to simulated protein-protein interactions to determine clustering mechanisms.

  13. An enhanced stream mining approach for network anomaly detection

    NASA Astrophysics Data System (ADS)

    Bellaachia, Abdelghani; Bhatt, Rajat

    2005-03-01

    Network anomaly detection is one of the hot topics in the market today. Currently, researchers are trying to find a way in which machines could automatically learn both normal and anomalous behavior and thus detect anomalies if and when they occur. Most important applications which could spring out of these systems is intrusion detection and spam mail detection. In this paper, the primary focus on the problem and solution of "real time" network intrusion detection although the underlying theory discussed may be used for other applications of anomaly detection (like spam detection or spy-ware detection) too. Since a machine needs a learning process on its own, data mining has been chosen as a preferred technique. The object of this paper is to present a real time clustering system; we call Enhanced Stream Mining (ESM) which could analyze packet information (headers, and data) to determine intrusions.

  14. Architectural approach for quality and safety aware healthcare social networks.

    PubMed

    López, Diego M; Blobel, Bernd; González, Carolina

    2012-01-01

    Quality of information and privacy and safety issues are frequently identified as main limitations to make most benefit from social media in healthcare. The objective of the paper is to contribute to the analysis of healthcare social networks (SN), and online healthcare social network services (SNS) by proposing a formal architectural analysis of healthcare SN and SNS, considering the complexity of both systems, but stressing on quality, safety and usability aspects. Quality policies are necessary to control the quality of content published by experts and consumers. Privacy and safety policies protect against inappropriate use of information and users responsibility for sharing information. After the policies are established and documented, a proof of concept online SNS supporting primary healthcare promotion is presented in the paper.

  15. Expertise finding in bibliographic network: topic dominance learning approach.

    PubMed

    Neshati, Mahmood; Hashemi, Seyyed Hadi; Beigy, Hamid

    2014-12-01

    Expert finding problem in bibliographic networks has received increased interest in recent years. This problem concerns finding relevant researchers for a given topic. Motivated by the observation that rarely do all coauthors contribute to a paper equally, in this paper, we propose two discriminative methods for realizing leading authors contributing in a scientific publication. Specifically, we cast the problem of expert finding in a bibliographic network to find leading experts in a research group, which is easier to solve. We recognize three feature groups that can discriminate relevant experts from other authors of a document. Experimental results on a real dataset, and a synthetic one that is gathered from a Microsoft academic search engine, show that the proposed model significantly improves the performance of expert finding in terms of all common information retrieval evaluation metrics.

  16. Analysis of bHLH coding genes using gene co-expression network approach.

    PubMed

    Srivastava, Swati; Sanchita; Singh, Garima; Singh, Noopur; Srivastava, Gaurava; Sharma, Ashok

    2016-07-01

    Network analysis provides a powerful framework for the interpretation of data. It uses novel reference network-based metrices for module evolution. These could be used to identify module of highly connected genes showing variation in co-expression network. In this study, a co-expression network-based approach was used for analyzing the genes from microarray data. Our approach consists of a simple but robust rank-based network construction. The publicly available gene expression data of Solanum tuberosum under cold and heat stresses were considered to create and analyze a gene co-expression network. The analysis provide highly co-expressed module of bHLH coding genes based on correlation values. Our approach was to analyze the variation of genes expression, according to the time period of stress through co-expression network approach. As the result, the seed genes were identified showing multiple connections with other genes in the same cluster. Seed genes were found to be vary in different time periods of stress. These analyzed seed genes may be utilized further as marker genes for developing the stress tolerant plant species.

  17. A statistical mechanics approach to autopoietic immune networks

    NASA Astrophysics Data System (ADS)

    Barra, Adriano; Agliari, Elena

    2010-07-01

    In this work we aim to bridge theoretical immunology and disordered statistical mechanics. We introduce a model for the behavior of B-cells which naturally merges the clonal selection theory and the autopoietic network theory as a whole. From the analysis of its features we recover several basic phenomena such as low-dose tolerance, dynamical memory of antigens and self/non-self discrimination.

  18. Governance of integrated delivery systems/networks: a stakeholder approach.

    PubMed

    Savage, G T; Taylor, R L; Rotarius, T M; Buesseler, J A

    1997-01-01

    The health care environment is complex and turbulent, and traditional governance forms face many challenges. As integrated delivery systems/networks are formed, governance structures must be responsive to both internal and external stakeholders. Both internal efficiencies and socially responsible actions are required of these relatively new organizational forms. To meet these needs, a two-tier governance structure is presented that consists of overarching and facilitating boards. PMID:9058084

  19. Tracing Road Network Bottleneck by Data Driven Approach.

    PubMed

    Qi, Hongsheng; Liu, Meiqi; Zhang, Lihui; Wang, Dianhai

    2016-01-01

    Urban road congestions change both temporally and spatially. They are essentially caused by network bottlenecks. Therefore, understanding bottleneck dynamics is critical in the goal of reasonably allocating transportation resources. In general, a typical bottleneck experiences the stages of formation, propagation and dispersion. In order to understand the three stages of a bottle neck and how the bottleneck moves on a road network, traffic flow data can be used to reconstruct these dynamics. However, raw traffic flow data is usually flawed in many ways. For instance some portion of data may be missing due to the failure of data collection devices, or some random factors in the data make it hard to identify real bottlenecks. In this paper a "user voting method" is proposed to deal with such raw-data-related issues. In this method, road links are ranked according to the weighed sum of certain performance measures and the links that are ranked relatively high are regarded as recurrent bottlenecks in a network, and several bottlenecks form a bottleneck area. A series of bottleneck parameters can be defined based on the identified bottleneck areas, such as bottleneck coverage, bottleneck link length, etc. Identifying bottleneck areas and calculating the bottleneck parameters for each time interval can reflect the evolution of the bottlenecks and also help trace how the bottlenecks move. PMID:27228150

  20. Active traffic management on road networks: a macroscopic approach.

    PubMed

    Kurzhanskiy, Alex A; Varaiya, Pravin

    2010-10-13

    Active traffic management (ATM) is the ability to dynamically manage recurrent and non-recurrent congestion based on prevailing traffic conditions in order to maximize the effectiveness and efficiency of road networks. It is a continuous process of (i) obtaining and analysing traffic measurement data, (ii) operations planning, i.e. simulating various scenarios and control strategies, (iii) implementing the most promising control strategies in the field, and (iv) maintaining a real-time decision support system that filters current traffic measurements to predict the traffic state in the near future, and to suggest the best available control strategy for the predicted situation. ATM relies on a fast and trusted traffic simulator for the rapid quantitative assessment of a large number of control strategies for the road network under various scenarios, in a matter of minutes. The open-source macrosimulation tool Aurora ROAD NETWORK MODELER is a good candidate for this purpose. The paper describes the underlying dynamical traffic model and what it takes to prepare the model for simulation; covers the traffic performance measures and evaluation of scenarios as part of operations planning; introduces the framework within which the control strategies are modelled and evaluated; and presents the algorithm for real-time traffic state estimation and short-term prediction.

  1. Tracing Road Network Bottleneck by Data Driven Approach

    PubMed Central

    Qi, Hongsheng; Liu, Meiqi; Zhang, Lihui; Wang, Dianhai

    2016-01-01

    Urban road congestions change both temporally and spatially. They are essentially caused by network bottlenecks. Therefore, understanding bottleneck dynamics is critical in the goal of reasonably allocating transportation resources. In general, a typical bottleneck experiences the stages of formation, propagation and dispersion. In order to understand the three stages of a bottle neck and how the bottleneck moves on a road network, traffic flow data can be used to reconstruct these dynamics. However, raw traffic flow data is usually flawed in many ways. For instance some portion of data may be missing due to the failure of data collection devices, or some random factors in the data make it hard to identify real bottlenecks. In this paper a “user voting method” is proposed to deal with such raw-data-related issues. In this method, road links are ranked according to the weighed sum of certain performance measures and the links that are ranked relatively high are regarded as recurrent bottlenecks in a network, and several bottlenecks form a bottleneck area. A series of bottleneck parameters can be defined based on the identified bottleneck areas, such as bottleneck coverage, bottleneck link length, etc. Identifying bottleneck areas and calculating the bottleneck parameters for each time interval can reflect the evolution of the bottlenecks and also help trace how the bottlenecks move. PMID:27228150

  2. A Network Biology Approach to Denitrification in Pseudomonas aeruginosa

    PubMed Central

    Arat, Seda; Bullerjahn, George S.; Laubenbacher, Reinhard

    2015-01-01

    Pseudomonas aeruginosa is a metabolically flexible member of the Gammaproteobacteria. Under anaerobic conditions and the presence of nitrate, P. aeruginosa can perform (complete) denitrification, a respiratory process of dissimilatory nitrate reduction to nitrogen gas via nitrite (NO2), nitric oxide (NO) and nitrous oxide (N2O). This study focuses on understanding the influence of environmental conditions on bacterial denitrification performance, using a mathematical model of a metabolic network in P. aeruginosa. To our knowledge, this is the first mathematical model of denitrification for this bacterium. Analysis of the long-term behavior of the network under changing concentration levels of oxygen (O2), nitrate (NO3), and phosphate (PO4) suggests that PO4 concentration strongly affects denitrification performance. The model provides three predictions on denitrification activity of P. aeruginosa under various environmental conditions, and these predictions are either experimentally validated or supported by pertinent biological literature. One motivation for this study is to capture the effect of PO4 on a denitrification metabolic network of P. aeruginosa in order to shed light on mechanisms for greenhouse gas N2O accumulation during seasonal oxygen depletion in aquatic environments such as Lake Erie (Laurentian Great Lakes, USA). Simulating the microbial production of greenhouse gases in anaerobic aquatic systems such as Lake Erie allows a deeper understanding of the contributing environmental effects that will inform studies on, and remediation strategies for, other hypoxic sites worldwide. PMID:25706405

  3. A systems approach to mapping transcriptional networks controlling surfactant homeostasis

    PubMed Central

    2010-01-01

    Background Pulmonary surfactant is required for lung function at birth and throughout life. Lung lipid and surfactant homeostasis requires regulation among multi-tiered processes, coordinating the synthesis of surfactant proteins and lipids, their assembly, trafficking, and storage in type II cells of the lung. The mechanisms regulating these interrelated processes are largely unknown. Results We integrated mRNA microarray data with array independent knowledge using Gene Ontology (GO) similarity analysis, promoter motif searching, protein interaction and literature mining to elucidate genetic networks regulating lipid related biological processes in lung. A Transcription factor (TF) - target gene (TG) similarity matrix was generated by integrating data from different analytic methods. A scoring function was built to rank the likely TF-TG pairs. Using this strategy, we identified and verified critical components of a transcriptional network directing lipogenesis, lipid trafficking and surfactant homeostasis in the mouse lung. Conclusions Within the transcriptional network, SREBP, CEBPA, FOXA2, ETSF, GATA6 and IRF1 were identified as regulatory hubs displaying high connectivity. SREBP, FOXA2 and CEBPA together form a common core regulatory module that controls surfactant lipid homeostasis. The core module cooperates with other factors to regulate lipid metabolism and transport, cell growth and development, cell death and cell mediated immune response. Coordinated interactions of the TFs influence surfactant homeostasis and regulate lung function at birth. PMID:20659319

  4. A network biology approach to denitrification in Pseudomonas aeruginosa

    DOE PAGESBeta

    Arat, Seda; Bullerjahn, George S.; Laubenbacher, Reinhard

    2015-02-23

    Pseudomonas aeruginosa is a metabolically flexible member of the Gammaproteobacteria. Under anaerobic conditions and the presence of nitrate, P. aeruginosa can perform (complete) denitrification, a respiratory process of dissimilatory nitrate reduction to nitrogen gas via nitrite (NO₂), nitric oxide (NO) and nitrous oxide (N₂O). This study focuses on understanding the influence of environmental conditions on bacterial denitrification performance, using a mathematical model of a metabolic network in P. aeruginosa. To our knowledge, this is the first mathematical model of denitrification for this bacterium. Analysis of the long-term behavior of the network under changing concentration levels of oxygen (O₂), nitrate (NO₃),more » and phosphate (PO₄) suggests that PO₄ concentration strongly affects denitrification performance. The model provides three predictions on denitrification activity of P. aeruginosa under various environmental conditions, and these predictions are either experimentally validated or supported by pertinent biological literature. One motivation for this study is to capture the effect of PO₄ on a denitrification metabolic network of P. aeruginosa in order to shed light on mechanisms for greenhouse gas N₂O accumulation during seasonal oxygen depletion in aquatic environments such as Lake Erie (Laurentian Great Lakes, USA). Simulating the microbial production of greenhouse gases in anaerobic aquatic systems such as Lake Erie allows a deeper understanding of the contributing environmental effects that will inform studies on, and remediation strategies for, other hypoxic sites worldwide.« less

  5. Network-based stochastic competitive learning approach to disambiguation in collaborative networks.

    PubMed

    Christiano Silva, Thiago; Raphael Amancio, Diego

    2013-03-01

    Many patterns have been uncovered in complex systems through the application of concepts and methodologies of complex networks. Unfortunately, the validity and accuracy of the unveiled patterns are strongly dependent on the amount of unavoidable noise pervading the data, such as the presence of homonymous individuals in social networks. In the current paper, we investigate the problem of name disambiguation in collaborative networks, a task that plays a fundamental role on a myriad of scientific contexts. In special, we use an unsupervised technique which relies on a particle competition mechanism in a networked environment to detect the clusters. It has been shown that, in this kind of environment, the learning process can be improved because the network representation of data can capture topological features of the input data set. Specifically, in the proposed disambiguating model, a set of particles is randomly spawned into the nodes constituting the network. As time progresses, the particles employ a movement strategy composed of a probabilistic convex mixture of random and preferential walking policies. In the former, the walking rule exclusively depends on the topology of the network and is responsible for the exploratory behavior of the particles. In the latter, the walking rule depends both on the topology and the domination levels that the particles impose on the neighboring nodes. This type of behavior compels the particles to perform a defensive strategy, because it will force them to revisit nodes that are already dominated by them, rather than exploring rival territories. Computer simulations conducted on the networks extracted from the arXiv repository of preprint papers and also from other databases reveal the effectiveness of the model, which turned out to be more accurate than traditional clustering methods. PMID:23556976

  6. Network-based stochastic competitive learning approach to disambiguation in collaborative networks

    NASA Astrophysics Data System (ADS)

    Christiano Silva, Thiago; Raphael Amancio, Diego

    2013-03-01

    Many patterns have been uncovered in complex systems through the application of concepts and methodologies of complex networks. Unfortunately, the validity and accuracy of the unveiled patterns are strongly dependent on the amount of unavoidable noise pervading the data, such as the presence of homonymous individuals in social networks. In the current paper, we investigate the problem of name disambiguation in collaborative networks, a task that plays a fundamental role on a myriad of scientific contexts. In special, we use an unsupervised technique which relies on a particle competition mechanism in a networked environment to detect the clusters. It has been shown that, in this kind of environment, the learning process can be improved because the network representation of data can capture topological features of the input data set. Specifically, in the proposed disambiguating model, a set of particles is randomly spawned into the nodes constituting the network. As time progresses, the particles employ a movement strategy composed of a probabilistic convex mixture of random and preferential walking policies. In the former, the walking rule exclusively depends on the topology of the network and is responsible for the exploratory behavior of the particles. In the latter, the walking rule depends both on the topology and the domination levels that the particles impose on the neighboring nodes. This type of behavior compels the particles to perform a defensive strategy, because it will force them to revisit nodes that are already dominated by them, rather than exploring rival territories. Computer simulations conducted on the networks extracted from the arXiv repository of preprint papers and also from other databases reveal the effectiveness of the model, which turned out to be more accurate than traditional clustering methods.

  7. Network-based stochastic competitive learning approach to disambiguation in collaborative networks.

    PubMed

    Christiano Silva, Thiago; Raphael Amancio, Diego

    2013-03-01

    Many patterns have been uncovered in complex systems through the application of concepts and methodologies of complex networks. Unfortunately, the validity and accuracy of the unveiled patterns are strongly dependent on the amount of unavoidable noise pervading the data, such as the presence of homonymous individuals in social networks. In the current paper, we investigate the problem of name disambiguation in collaborative networks, a task that plays a fundamental role on a myriad of scientific contexts. In special, we use an unsupervised technique which relies on a particle competition mechanism in a networked environment to detect the clusters. It has been shown that, in this kind of environment, the learning process can be improved because the network representation of data can capture topological features of the input data set. Specifically, in the proposed disambiguating model, a set of particles is randomly spawned into the nodes constituting the network. As time progresses, the particles employ a movement strategy composed of a probabilistic convex mixture of random and preferential walking policies. In the former, the walking rule exclusively depends on the topology of the network and is responsible for the exploratory behavior of the particles. In the latter, the walking rule depends both on the topology and the domination levels that the particles impose on the neighboring nodes. This type of behavior compels the particles to perform a defensive strategy, because it will force them to revisit nodes that are already dominated by them, rather than exploring rival territories. Computer simulations conducted on the networks extracted from the arXiv repository of preprint papers and also from other databases reveal the effectiveness of the model, which turned out to be more accurate than traditional clustering methods.

  8. Heuristic approaches for energy-efficient shared restoration in WDM networks

    NASA Astrophysics Data System (ADS)

    Alilou, Shahab

    In recent years, there has been ongoing research on the design of energy-efficient Wavelength Division Multiplexing (WDM) networks. The explosive growth of Internet traffic has led to increased power consumption of network components. Network survivability has also been a relevant research topic, as it plays a crucial role in assuring continuity of service with no disruption, regardless of network component failure. Network survivability mechanisms tend to utilize considerable resources such as spare capacity in order to protect and restore information. This thesis investigates techniques for reducing energy demand and enhancing energy efficiency in the context of network survivability. We propose two novel heuristic energy-efficient shared protection approaches for WDM networks. These approaches intend to save energy by setting on sleep mode devices that are not being used while providing shared backup paths to satisfy network survivability. The first approach exploits properties of a math series in order to assign weight to the network links. It aims at reducing power consumption at the network indirectly by aggregating traffic on a set of nodes and links with high traffic load level. Routing traffic on links and nodes that are already under utilization makes it possible for the links and nodes with no load to be set on sleep mode. The second approach is intended to dynamically route traffic through nodes and links with high traffic load level. Similar to the first approach, this approach computes a pair of paths for every newly arrived demand. It computes these paths for every new demand by comparing the power consumption of nodes and links in the network before the demand arrives with their potential power consumption if they are chosen along the paths of this demand. Simulations of two different networks were used to compare the total network power consumption obtained using the proposed techniques against a standard shared-path restoration scheme. Shared

  9. Students' Approaches to Study, Conceptions of Learning and Judgements about the Value of Networked Technologies

    ERIC Educational Resources Information Center

    Buckley, Charles Alan; Pitt, Edd; Norton, Bill; Owens, Tessa

    2010-01-01

    This project examined the relationships between students' approaches to study, conceptions of learning and judgements about the value of networked technologies. For the project 144 first-year students completed the 52-item Approaches and Study Skills Inventory for Students (ASSIST), and a series of focus group interviews was used to assess…

  10. Deep space network resource scheduling approach and application

    NASA Technical Reports Server (NTRS)

    Eggemeyer, William C.; Bowling, Alan

    1987-01-01

    Deep Space Network (DSN) resource scheduling is the process of distributing ground-based facilities to track multiple spacecraft. The Jet Propulsion Laboratory has carried out extensive research to find ways of automating this process in an effort to reduce time and manpower costs. This paper presents a resource-scheduling system entitled PLAN-IT with a description of its design philosophy. The PLAN-IT's current on-line usage and limitations in scheduling the resources of the DSN are discussed, along with potential enhancements for DSN application.

  11. Disrupting Terrorist Networks — A Dynamic Fitness Landscape Approach

    NASA Astrophysics Data System (ADS)

    Fellman, Philip V.; Clemens, Jonathan P.; Wright, Roxana; Post, Jonathan Vos; Dadmun, Matthew

    The study of terrorist networks as well as the study of how to impede their successful functioning has been the topic of considerable attention since the odious event of the 2001 World Trade Center disaster. While serious students of terrorism were indeed engaged in the subject prior to this time, a far more general concern has arisen subsequently. Nonetheless, much of the subject remains shrouded in obscurity, not the least because of difficulties with language and the representation or translation of names, and the inherent complexity and ambiguity of the subject matter.

  12. Link removal for the control of stochastically evolving epidemics over networks: a comparison of approaches.

    PubMed

    Enns, Eva A; Brandeau, Margaret L

    2015-04-21

    For many communicable diseases, knowledge of the underlying contact network through which the disease spreads is essential to determining appropriate control measures. When behavior change is the primary intervention for disease prevention, it is important to understand how to best modify network connectivity using the limited resources available to control disease spread. We describe and compare four algorithms for selecting a limited number of links to remove from a network: two "preventive" approaches (edge centrality, R0 minimization), where the decision of which links to remove is made prior to any disease outbreak and depends only on the network structure; and two "reactive" approaches (S-I edge centrality, optimal quarantining), where information about the initial disease states of the nodes is incorporated into the decision of which links to remove. We evaluate the performance of these algorithms in minimizing the total number of infections that occur over the course of an acute outbreak of disease. We consider different network structures, including both static and dynamic Erdös-Rényi random networks with varying levels of connectivity, a real-world network of residential hotels connected through injection drug use, and a network exhibiting community structure. We show that reactive approaches outperform preventive approaches in averting infections. Among reactive approaches, removing links in order of S-I edge centrality is favored when the link removal budget is small, while optimal quarantining performs best when the link removal budget is sufficiently large. The budget threshold above which optimal quarantining outperforms the S-I edge centrality algorithm is a function of both network structure (higher for unstructured Erdös-Rényi random networks compared to networks with community structure or the real-world network) and disease infectiousness (lower for highly infectious diseases). We conduct a value-of-information analysis of knowing which

  13. Model-Driven Approach for Body Area Network Application Development

    PubMed Central

    Venčkauskas, Algimantas; Štuikys, Vytautas; Jusas, Nerijus; Burbaitė, Renata

    2016-01-01

    This paper introduces the sensor-networked IoT model as a prototype to support the design of Body Area Network (BAN) applications for healthcare. Using the model, we analyze the synergistic effect of the functional requirements (data collection from the human body and transferring it to the top level) and non-functional requirements (trade-offs between energy-security-environmental factors, treated as Quality-of-Service (QoS)). We use feature models to represent the requirements at the earliest stage for the analysis and describe a model-driven methodology to design the possible BAN applications. Firstly, we specify the requirements as the problem domain (PD) variability model for the BAN applications. Next, we introduce the generative technology (meta-programming as the solution domain (SD)) and the mapping procedure to map the PD feature-based variability model onto the SD feature model. Finally, we create an executable meta-specification that represents the BAN functionality to describe the variability of the problem domain though transformations. The meta-specification (along with the meta-language processor) is a software generator for multiple BAN-oriented applications. We validate the methodology with experiments and a case study to generate a family of programs for the BAN sensor controllers. This enables to obtain the adequate measure of QoS efficiently through the interactive adjustment of the meta-parameter values and re-generation process for the concrete BAN application. PMID:27187394

  14. Model-Driven Approach for Body Area Network Application Development.

    PubMed

    Venčkauskas, Algimantas; Štuikys, Vytautas; Jusas, Nerijus; Burbaitė, Renata

    2016-05-12

    This paper introduces the sensor-networked IoT model as a prototype to support the design of Body Area Network (BAN) applications for healthcare. Using the model, we analyze the synergistic effect of the functional requirements (data collection from the human body and transferring it to the top level) and non-functional requirements (trade-offs between energy-security-environmental factors, treated as Quality-of-Service (QoS)). We use feature models to represent the requirements at the earliest stage for the analysis and describe a model-driven methodology to design the possible BAN applications. Firstly, we specify the requirements as the problem domain (PD) variability model for the BAN applications. Next, we introduce the generative technology (meta-programming as the solution domain (SD)) and the mapping procedure to map the PD feature-based variability model onto the SD feature model. Finally, we create an executable meta-specification that represents the BAN functionality to describe the variability of the problem domain though transformations. The meta-specification (along with the meta-language processor) is a software generator for multiple BAN-oriented applications. We validate the methodology with experiments and a case study to generate a family of programs for the BAN sensor controllers. This enables to obtain the adequate measure of QoS efficiently through the interactive adjustment of the meta-parameter values and re-generation process for the concrete BAN application.

  15. A neural network approach to lung nodule segmentation

    NASA Astrophysics Data System (ADS)

    Hu, Yaoxiu; Menon, Prahlad G.

    2016-03-01

    Computed tomography (CT) imaging is a sensitive and specific lung cancer screening tool for the high-risk population and shown to be promising for detection of lung cancer. This study proposes an automatic methodology for detecting and segmenting lung nodules from CT images. The proposed methods begin with thorax segmentation, lung extraction and reconstruction of the original shape of the parenchyma using morphology operations. Next, a multi-scale hessian-based vesselness filter is applied to extract lung vasculature in lung. The lung vasculature mask is subtracted from the lung region segmentation mask to extract 3D regions representing candidate pulmonary nodules. Finally, the remaining structures are classified as nodules through shape and intensity features which are together used to train an artificial neural network. Up to 75% sensitivity and 98% specificity was achieved for detection of lung nodules in our testing dataset, with an overall accuracy of 97.62%+/-0.72% using 11 selected features as input to the neural network classifier, based on 4-fold cross-validation studies. Receiver operator characteristics for identifying nodules revealed an area under curve of 0.9476.

  16. The propagation approach for computing biochemical reaction networks.

    PubMed

    Henzinger, Thomas A; Mateescu, Maria

    2013-01-01

    We introduce propagation models (PMs), a formalism able to express several kinds of equations that describe the behavior of biochemical reaction networks. Furthermore, we introduce the propagation abstract data type (PADT), which separates concerns regarding different numerical algorithms for the transient analysis of biochemical reaction networks from concerns regarding their implementation, thus allowing for portable and efficient solutions. The state of a propagation abstract data type is given by a vector that assigns mass values to a set of nodes, and its next operator propagates mass values through this set of nodes. We propose an approximate implementation of the next operator, based on threshold abstraction, which propagates only "significant" mass values and thus achieves a compromise between efficiency and accuracy. Finally, we give three use cases for propagation models: the chemical master equation (CME), the reaction rate equation (RRE), and a hybrid method that combines these two equations. These three applications use propagation models in order to propagate probabilities and/or expected values and variances of the model's variables.

  17. Model-Driven Approach for Body Area Network Application Development.

    PubMed

    Venčkauskas, Algimantas; Štuikys, Vytautas; Jusas, Nerijus; Burbaitė, Renata

    2016-01-01

    This paper introduces the sensor-networked IoT model as a prototype to support the design of Body Area Network (BAN) applications for healthcare. Using the model, we analyze the synergistic effect of the functional requirements (data collection from the human body and transferring it to the top level) and non-functional requirements (trade-offs between energy-security-environmental factors, treated as Quality-of-Service (QoS)). We use feature models to represent the requirements at the earliest stage for the analysis and describe a model-driven methodology to design the possible BAN applications. Firstly, we specify the requirements as the problem domain (PD) variability model for the BAN applications. Next, we introduce the generative technology (meta-programming as the solution domain (SD)) and the mapping procedure to map the PD feature-based variability model onto the SD feature model. Finally, we create an executable meta-specification that represents the BAN functionality to describe the variability of the problem domain though transformations. The meta-specification (along with the meta-language processor) is a software generator for multiple BAN-oriented applications. We validate the methodology with experiments and a case study to generate a family of programs for the BAN sensor controllers. This enables to obtain the adequate measure of QoS efficiently through the interactive adjustment of the meta-parameter values and re-generation process for the concrete BAN application. PMID:27187394

  18. Direction-dependent learning approach for radial basis function networks.

    PubMed

    Singla, Puneet; Subbarao, Kamesh; Junkins, John L

    2007-01-01

    Direction-dependent scaling, shaping, and rotation of Gaussian basis functions are introduced for maximal trend sensing with minimal parameter representations for input output approximation. It is shown that shaping and rotation of the radial basis functions helps in reducing the total number of function units required to approximate any given input-output data, while improving accuracy. Several alternate formulations that enforce minimal parameterization of the most general radial basis functions are presented. A novel "directed graph" based algorithm is introduced to facilitate intelligent direction based learning and adaptation of the parameters appearing in the radial basis function network. Further, a parameter estimation algorithm is incorporated to establish starting estimates for the model parameters using multiple windows of the input-output data. The efficacy of direction-dependent shaping and rotation in function approximation is evaluated by modifying the minimal resource allocating network and considering different test examples. The examples are drawn from recent literature to benchmark the new algorithm versus existing methods.

  19. A Monte Carlo EM approach for partially observable diffusion processes: theory and applications to neural networks.

    PubMed

    Movellan, Javier R; Mineiro, Paul; Williams, R J

    2002-07-01

    We present a Monte Carlo approach for training partially observable diffusion processes. We apply the approach to diffusion networks, a stochastic version of continuous recurrent neural networks. The approach is aimed at learning probability distributions of continuous paths, not just expected values. Interestingly, the relevant activation statistics used by the learning rule presented here are inner products in the Hilbert space of square integrable functions. These inner products can be computed using Hebbian operations and do not require backpropagation of error signals. Moreover, standard kernel methods could potentially be applied to compute such inner products. We propose that the main reason that recurrent neural networks have not worked well in engineering applications (e.g., speech recognition) is that they implicitly rely on a very simplistic likelihood model. The diffusion network approach proposed here is much richer and may open new avenues for applications of recurrent neural networks. We present some analysis and simulations to support this view. Very encouraging results were obtained on a visual speech recognition task in which neural networks outperformed hidden Markov models.

  20. Neighborhoods and Adolescent Health-Risk Behavior: An Ecological Network Approach1

    PubMed Central

    Browning, Christopher R.; Soller, Brian; Jackson, Aubrey L.

    2014-01-01

    This study integrates insights from social network analysis, activity space perspectives, and theories of urban and spatial processes to present an innovative approach to neighborhood effects on health-risk behavior among youth. We suggest spatial patterns of neighborhood residents’ non-home routine activities may be conceptualized as ecological, or “eco”-networks, which are two-mode networks that indirectly link residents through socio-spatial overlap in routine activities. We further argue structural configurations of eco-networks are consequential for youth’s behavioral health. In this study we focus on a key structural feature of eco-networks—the neighborhood-level extent to which households share two or more activity locations, or eco-network reinforcement—and its association with two dimensions of health-risk behavior, substance use and delinquency/sexual activity. Using geographic data on non-home routine activity locations among respondents from the Los Angeles Family and Neighborhood Survey (L.A.FANS), we constructed neighborhood-specific eco-networks by connecting sampled households to “activity clusters,” which are sets of spatially-proximate activity locations. We then measured eco-network reinforcement and examined its association with adolescent dimensions of health risk behavior employing a sample of 830 youth ages 12-17 nested in 65 census tracts. We also examined whether neighborhood-level social processes (collective efficacy and intergenerational closure) mediate the association between eco-network reinforcement and the outcomes considered. Results indicated eco-network reinforcement exhibits robust negative associations with both substance use and delinquency/sexual activity scales. Eco-network reinforcement effects were not explained by potential mediating variables. In addition to introducing a novel theoretical and empirical approach to neighborhood effects on youth, our findings highlight the importance of eco-network

  1. Neighborhoods and adolescent health-risk behavior: an ecological network approach.

    PubMed

    Browning, Christopher R; Soller, Brian; Jackson, Aubrey L

    2015-01-01

    This study integrates insights from social network analysis, activity space perspectives, and theories of urban and spatial processes to present an novel approach to neighborhood effects on health-risk behavior among youth. We suggest spatial patterns of neighborhood residents' non-home routines may be conceptualized as ecological, or "eco"-networks, which are two-mode networks that indirectly link residents through socio-spatial overlap in routine activities. We further argue structural configurations of eco-networks are consequential for youth's behavioral health. In this study we focus on a key structural feature of eco-networks--the neighborhood-level extent to which household dyads share two or more activity locations, or eco-network reinforcement--and its association with two dimensions of health-risk behavior, substance use and delinquency/sexual activity. Using geographic data on non-home routine activity locations among respondents from the Los Angeles Family and Neighborhood Survey (L.A.FANS), we constructed neighborhood-specific eco-networks by connecting sampled households to "activity clusters," which are sets of spatially-proximate activity locations. We then measured eco-network reinforcement and examined its association with dimensions of adolescent health risk behavior employing a sample of 830 youth ages 12-17 nested in 65 census tracts. We also examined whether neighborhood-level social processes (collective efficacy and intergenerational closure) mediate the association between eco-network reinforcement and the outcomes considered. Results indicated eco-network reinforcement exhibits robust negative associations with both substance use and delinquency/sexual activity scales. Eco-network reinforcement effects were not explained by potential mediating variables. In addition to introducing a novel theoretical and empirical approach to neighborhood effects on youth, our findings highlight the importance of intersecting conventional routines for

  2. Network topology and parameter estimation: from experimental design methods to gene regulatory network kinetics using a community based approach

    PubMed Central

    2014-01-01

    Background Accurate estimation of parameters of biochemical models is required to characterize the dynamics of molecular processes. This problem is intimately linked to identifying the most informative experiments for accomplishing such tasks. While significant progress has been made, effective experimental strategies for parameter identification and for distinguishing among alternative network topologies remain unclear. We approached these questions in an unbiased manner using a unique community-based approach in the context of the DREAM initiative (Dialogue for Reverse Engineering Assessment of Methods). We created an in silico test framework under which participants could probe a network with hidden parameters by requesting a range of experimental assays; results of these experiments were simulated according to a model of network dynamics only partially revealed to participants. Results We proposed two challenges; in the first, participants were given the topology and underlying biochemical structure of a 9-gene regulatory network and were asked to determine its parameter values. In the second challenge, participants were given an incomplete topology with 11 genes and asked to find three missing links in the model. In both challenges, a budget was provided to buy experimental data generated in silico with the model and mimicking the features of different common experimental techniques, such as microarrays and fluorescence microscopy. Data could be bought at any stage, allowing participants to implement an iterative loop of experiments and computation. Conclusions A total of 19 teams participated in this competition. The results suggest that the combination of state-of-the-art parameter estimation and a varied set of experimental methods using a few datasets, mostly fluorescence imaging data, can accurately determine parameters of biochemical models of gene regulation. However, the task is considerably more difficult if the gene network topology is not completely

  3. Copercolating Networks: An Approach for Realizing High-Performance Transparent Conductors using Multicomponent Nanostructured Networks

    NASA Astrophysics Data System (ADS)

    Das, Suprem R.; Sadeque, Sajia; Jeong, Changwook; Chen, Ruiyi; Alam, Muhammad A.; Janes, David B.

    2016-06-01

    Although transparent conductive oxides such as indium tin oxide (ITO) are widely employed as transparent conducting electrodes (TCEs) for applications such as touch screens and displays, new nanostructured TCEs are of interest for future applications, including emerging transparent and flexible electronics. A number of twodimensional networks of nanostructured elements have been reported, including metallic nanowire networks consisting of silver nanowires, metallic carbon nanotubes (m-CNTs), copper nanowires or gold nanowires, and metallic mesh structures. In these single-component systems, it has generally been difficult to achieve sheet resistances that are comparable to ITO at a given broadband optical transparency. A relatively new third category of TCEs consisting of networks of 1D-1D and 1D-2D nanocomposites (such as silver nanowires and CNTs, silver nanowires and polycrystalline graphene, silver nanowires and reduced graphene oxide) have demonstrated TCE performance comparable to, or better than, ITO. In such hybrid networks, copercolation between the two components can lead to relatively low sheet resistances at nanowire densities corresponding to high optical transmittance. This review provides an overview of reported hybrid networks, including a comparison of the performance regimes achievable with those of ITO and single-component nanostructured networks. The performance is compared to that expected from bulk thin films and analyzed in terms of the copercolation model. In addition, performance characteristics relevant for flexible and transparent applications are discussed. The new TCEs are promising, but significant work must be done to ensure earth abundance, stability, and reliability so that they can eventually replace traditional ITO-based transparent conductors.

  4. Network-theoretical approach to partitioning of real power grids

    NASA Astrophysics Data System (ADS)

    Abou Hamad, Ibrahim; Israels, Brett; Poroseva, Svetlana V.; Rikvold, Per Arne

    2010-03-01

    Modern societies depend critically on their electrical power grids. It is, therefore, essential to understand the grid's large-scale behavior in order to improve its resilience against catastrophic damage. A key factor determining the grid's large-scale behavior is its topology. In particular, an important question is whether a grid topology can be efficiently partitioned into independent communities (``islands'') of densely connected vertices (generators, substations, consumers) that are more loosely connected to other communities. Such partitioning can be utilized either to strengthen the grid by introducing new connections, or to achieve ``Intentional Intelligent Islanding'' by installing control devices in a minimal number of links in order to contain cascading failures to a limited region. Here we report on the performance of several network-partitioning algorithms, both agglomerative and spectral-based divisive, in applications to real power grids, including the high-voltage grids of Florida and Italy.

  5. A Game-Theoretical Approach to Multimedia Social Networks Security

    PubMed Central

    Liu, Enqiang; Liu, Zengliang; Shao, Fei; Zhang, Zhiyong

    2014-01-01

    The contents access and sharing in multimedia social networks (MSNs) mainly rely on access control models and mechanisms. Simple adoptions of security policies in the traditional access control model cannot effectively establish a trust relationship among parties. This paper proposed a novel two-party trust architecture (TPTA) to apply in a generic MSN scenario. According to the architecture, security policies are adopted through game-theoretic analyses and decisions. Based on formalized utilities of security policies and security rules, the choice of security policies in content access is described as a game between the content provider and the content requester. By the game method for the combination of security policies utility and its influences on each party's benefits, the Nash equilibrium is achieved, that is, an optimal and stable combination of security policies, to establish and enhance trust among stakeholders. PMID:24977226

  6. Neural network approach to classification of traffic flow states

    SciTech Connect

    Yang, H.; Qiao, F.

    1998-11-01

    The classification of traffic flow states in China has traditionally been based on the Highway Capacity Manual, published in the United States. Because traffic conditions are generally different from country to country, though, it is important to develop a practical and useful classification method applicable to Chinese highway traffic. In view of the difficulty and complexity of a mathematical and physical realization, modern pattern recognition methods are considered practical in fulfilling this goal. This study applies a self-organizing neural network pattern recognition method to classify highway traffic states into some distinctive cluster centers. A small scale test with actual data is conducted, and the method is found to be potentially applicable in practice.

  7. Genetic variants in Alzheimer disease - molecular and brain network approaches.

    PubMed

    Gaiteri, Chris; Mostafavi, Sara; Honey, Christopher J; De Jager, Philip L; Bennett, David A

    2016-07-01

    Genetic studies in late-onset Alzheimer disease (LOAD) are aimed at identifying core disease mechanisms and providing potential biomarkers and drug candidates to improve clinical care of AD. However, owing to the complexity of LOAD, including pathological heterogeneity and disease polygenicity, extraction of actionable guidance from LOAD genetics has been challenging. Past attempts to summarize the effects of LOAD-associated genetic variants have used pathway analysis and collections of small-scale experiments to hypothesize functional convergence across several variants. In this Review, we discuss how the study of molecular, cellular and brain networks provides additional information on the effects of LOAD-associated genetic variants. We then discuss emerging combinations of these omic data sets into multiscale models, which provide a more comprehensive representation of the effects of LOAD-associated genetic variants at multiple biophysical scales. Furthermore, we highlight the clinical potential of mechanistically coupling genetic variants and disease phenotypes with multiscale brain models. PMID:27282653

  8. A game-theoretical approach to multimedia social networks security.

    PubMed

    Liu, Enqiang; Liu, Zengliang; Shao, Fei; Zhang, Zhiyong

    2014-01-01

    The contents access and sharing in multimedia social networks (MSNs) mainly rely on access control models and mechanisms. Simple adoptions of security policies in the traditional access control model cannot effectively establish a trust relationship among parties. This paper proposed a novel two-party trust architecture (TPTA) to apply in a generic MSN scenario. According to the architecture, security policies are adopted through game-theoretic analyses and decisions. Based on formalized utilities of security policies and security rules, the choice of security policies in content access is described as a game between the content provider and the content requester. By the game method for the combination of security policies utility and its influences on each party's benefits, the Nash equilibrium is achieved, that is, an optimal and stable combination of security policies, to establish and enhance trust among stakeholders.

  9. A scenario planning approach for disasters on Swiss road network

    NASA Astrophysics Data System (ADS)

    Mendes, G. A.; Axhausen, K. W.; Andrade, J. S.; Herrmann, H. J.

    2014-05-01

    We study a vehicular traffic scenario on Swiss roads in an emergency situation, calculating how sequentially roads block due to excessive traffic load until global collapse (gridlock) occurs and in this way displays the fragilities of the system. We used a database from Bundesamt für Raumentwicklung which contains length and maximum allowed speed of all roads in Switzerland. The present work could be interesting for government agencies in planning and managing for emergency logistics for a country or a big city. The model used to generate the flux on the Swiss road network was proposed by Mendes et al. [Physica A 391, 362 (2012)]. It is based on the conservation of the number of vehicles and allows for an easy and fast way to follow the formation of traffic jams in large systems. We also analyze the difference between a nonlinear and a linear model and the distribution of fluxes on the Swiss road.

  10. A MCS Based Neural Network Approach to Extract Network Approximate Reliability Function

    NASA Astrophysics Data System (ADS)

    Yeh, Wei-Chang; Lin, Chien-Hsing; Lin, Yi-Cheng

    Simulations have been applied extensively to solve complex problems in real-world. They provide reference results and support the decision candidates in quantitative attributes. This paper combines ANN with Monte Carlo Simulation (MCS) to provide a reference model of predicting reliability of a network. It suggests reduced BBD design to select the input training data and opens the black box of neural networks through constructing the limited space reliability function from ANN parameters. Besides, this paper applies a practical problem that considers both cost and reliability to evaluate the performance of the ANN based reliability function.

  11. An Iterative Approach for the Optimization of Pavement Maintenance Management at the Network Level

    PubMed Central

    Torres-Machí, Cristina; Chamorro, Alondra; Videla, Carlos; Yepes, Víctor

    2014-01-01

    Pavement maintenance is one of the major issues of public agencies. Insufficient investment or inefficient maintenance strategies lead to high economic expenses in the long term. Under budgetary restrictions, the optimal allocation of resources becomes a crucial aspect. Two traditional approaches (sequential and holistic) and four classes of optimization methods (selection based on ranking, mathematical optimization, near optimization, and other methods) have been applied to solve this problem. They vary in the number of alternatives considered and how the selection process is performed. Therefore, a previous understanding of the problem is mandatory to identify the most suitable approach and method for a particular network. This study aims to assist highway agencies, researchers, and practitioners on when and how to apply available methods based on a comparative analysis of the current state of the practice. Holistic approach tackles the problem considering the overall network condition, while the sequential approach is easier to implement and understand, but may lead to solutions far from optimal. Scenarios defining the suitability of these approaches are defined. Finally, an iterative approach gathering the advantages of traditional approaches is proposed and applied in a case study. The proposed approach considers the overall network condition in a simpler and more intuitive manner than the holistic approach. PMID:24741352

  12. An iterative approach for the optimization of pavement maintenance management at the network level.

    PubMed

    Torres-Machí, Cristina; Chamorro, Alondra; Videla, Carlos; Pellicer, Eugenio; Yepes, Víctor

    2014-01-01

    Pavement maintenance is one of the major issues of public agencies. Insufficient investment or inefficient maintenance strategies lead to high economic expenses in the long term. Under budgetary restrictions, the optimal allocation of resources becomes a crucial aspect. Two traditional approaches (sequential and holistic) and four classes of optimization methods (selection based on ranking, mathematical optimization, near optimization, and other methods) have been applied to solve this problem. They vary in the number of alternatives considered and how the selection process is performed. Therefore, a previous understanding of the problem is mandatory to identify the most suitable approach and method for a particular network. This study aims to assist highway agencies, researchers, and practitioners on when and how to apply available methods based on a comparative analysis of the current state of the practice. Holistic approach tackles the problem considering the overall network condition, while the sequential approach is easier to implement and understand, but may lead to solutions far from optimal. Scenarios defining the suitability of these approaches are defined. Finally, an iterative approach gathering the advantages of traditional approaches is proposed and applied in a case study. The proposed approach considers the overall network condition in a simpler and more intuitive manner than the holistic approach.

  13. System Review about Function Role of ESCC Driver Gene KDM6A by Network Biology Approach

    PubMed Central

    Ran, Jihua; Li, Hui; Li, Huiwu

    2016-01-01

    Background. KDM6A (Lysine (K)-Specific Demethylase 6A) is the driver gene related to esophageal squamous cell carcinoma (ESCC). In order to provide more biological insights into KDM6A, in this paper, we treat PPI (protein-protein interaction) network derived from KDM6A as a conceptual framework and follow it to review its biological function. Method. We constructed a PPI network with Cytoscape software and performed clustering of network with Clust&See. Then, we evaluate the pathways, which are statistically involved in the network derived from KDM6A. Lastly, gene ontology analysis of clusters of genes in the network was conducted. Result. The network includes three clusters that consist of 74 nodes connected via 453 edges. Fifty-five pathways are statistically involved in the network and most of them are functionally related to the processes of cell cycle, gene expression, and carcinogenesis. The biology themes of clusters 1, 2, and 3 are chromatin modification, regulation of gene expression by transcription factor complex, and control of cell cycle, respectively. Conclusion. The PPI network presents a panoramic view which can facilitate for us to understand the function role of KDM6A. It is a helpful way by network approach to perform system review on a certain gene. PMID:27294188

  14. Establishment of a hydrological monitoring network in a tropical African catchment: An integrated participatory approach

    NASA Astrophysics Data System (ADS)

    Gomani, M. C.; Dietrich, O.; Lischeid, G.; Mahoo, H.; Mahay, F.; Mbilinyi, B.; Sarmett, J.

    Sound decision making for water resources management has to be based on good knowledge of the dominant hydrological processes of a catchment. This information can only be obtained through establishing suitable hydrological monitoring networks. Research catchments are typically established without involving the key stakeholders, which results in instruments being installed at inappropriate places as well as at high risk of theft and vandalism. This paper presents an integrated participatory approach for establishing a hydrological monitoring network. We propose a framework with six steps beginning with (i) inception of idea; (ii) stakeholder identification; (iii) defining the scope of the network; (iv) installation; (v) monitoring; and (vi) feedback mechanism integrated within the participatory framework. The approach is illustrated using an example of the Ngerengere catchment in Tanzania. In applying the approach, the concept of establishing the Ngerengere catchment monitoring network was initiated in 2008 within the Resilient Agro-landscapes to Climate Change in Tanzania (ReACCT) research program. The main stakeholders included: local communities; Sokoine University of Agriculture; Wami Ruvu Basin Water Office and the ReACCT Research team. The scope of the network was based on expert experience in similar projects and lessons learnt from literature review of similar projects from elsewhere integrated with local expert knowledge. The installations involved reconnaissance surveys, detailed surveys, and expert consultations to identify best sites. First, a Digital Elevation Model, land use, and soil maps were used to identify potential monitoring sites. Local and expert knowledge was collected on flow regimes, indicators of shallow groundwater plant species, precipitation pattern, vegetation, and soil types. This information was integrated and used to select sites for installation of an automatic weather station, automatic rain gauges, river flow gauging stations

  15. Why network approach can promote a new way of thinking in biology

    PubMed Central

    Giuliani, Alessandro; Filippi, Simonetta; Bertolaso, Marta

    2014-01-01

    This work deals with the particular nature of network-based approach in biology. We will comment about the shift from the consideration of the molecular layer as the definitive place where causative process start to the elucidation of the among elements (at any level of biological organization they are located) interaction network as the main goal of scientific explanation. This shift comes from the intrinsic nature of networks where the properties of a specific node are determined by its position in the entire network (top-down explanation) while the global network characteristics emerge from the nodes wiring pattern (bottom-up explanation). This promotes a “middle-out” paradigm formally identical to the time honored chemical thought holding big promises in the study of biological regulation. PMID:24782892

  16. Statistical Approaches for the Construction and Interpretation of Human Protein-Protein Interaction Network

    PubMed Central

    Hu, Yang; Zhang, Ying; Ren, Jun

    2016-01-01

    The overall goal is to establish a reliable human protein-protein interaction network and develop computational tools to characterize a protein-protein interaction (PPI) network and the role of individual proteins in the context of the network topology and their expression status. A novel and unique feature of our approach is that we assigned confidence measure to each derived interacting pair and account for the confidence in our network analysis. We integrated experimental data to infer human PPI network. Our model treated the true interacting status (yes versus no) for any given pair of human proteins as a latent variable whose value was not observed. The experimental data were the manifestation of interacting status, which provided evidence as to the likelihood of the interaction. The confidence of interactions would depend on the strength and consistency of the evidence.

  17. Statistical Approaches for the Construction and Interpretation of Human Protein-Protein Interaction Network.

    PubMed

    Hu, Yang; Zhang, Ying; Ren, Jun; Wang, Yadong; Wang, Zhenzhen; Zhang, Jun

    2016-01-01

    The overall goal is to establish a reliable human protein-protein interaction network and develop computational tools to characterize a protein-protein interaction (PPI) network and the role of individual proteins in the context of the network topology and their expression status. A novel and unique feature of our approach is that we assigned confidence measure to each derived interacting pair and account for the confidence in our network analysis. We integrated experimental data to infer human PPI network. Our model treated the true interacting status (yes versus no) for any given pair of human proteins as a latent variable whose value was not observed. The experimental data were the manifestation of interacting status, which provided evidence as to the likelihood of the interaction. The confidence of interactions would depend on the strength and consistency of the evidence. PMID:27648447

  18. Statistical Approaches for the Construction and Interpretation of Human Protein-Protein Interaction Network

    PubMed Central

    Hu, Yang; Zhang, Ying; Ren, Jun

    2016-01-01

    The overall goal is to establish a reliable human protein-protein interaction network and develop computational tools to characterize a protein-protein interaction (PPI) network and the role of individual proteins in the context of the network topology and their expression status. A novel and unique feature of our approach is that we assigned confidence measure to each derived interacting pair and account for the confidence in our network analysis. We integrated experimental data to infer human PPI network. Our model treated the true interacting status (yes versus no) for any given pair of human proteins as a latent variable whose value was not observed. The experimental data were the manifestation of interacting status, which provided evidence as to the likelihood of the interaction. The confidence of interactions would depend on the strength and consistency of the evidence. PMID:27648447

  19. A quantitative approach to measure road network information based on edge diversity

    NASA Astrophysics Data System (ADS)

    Wu, Xun; Zhang, Hong; Lan, Tian; Cao, Weiwei; He, Jing

    2015-12-01

    The measure of map information has been one of the key issues in assessing cartographic quality and map generalization algorithms. It is also important for developing efficient approaches to transfer geospatial information. Road network is the most common linear object in real world. Approximately describe road network information will benefit road map generalization, navigation map production and urban planning. Most of current approaches focused on node diversities and supposed that all the edges are the same, which is inconsistent to real-life condition, and thus show limitations in measuring network information. As real-life traffic flow are directed and of different quantities, the original undirected vector road map was first converted to a directed topographic connectivity map. Then in consideration of preferential attachment in complex network study and rich-club phenomenon in social network, the from and to weights of each edge are assigned. The from weight of a given edge is defined as the connectivity of its end node to the sum of the connectivities of all the neighbors of the from nodes of the edge. After getting the from and to weights of each edge, edge information, node information and the whole network structure information entropies could be obtained based on information theory. The approach has been applied to several 1 square mile road network samples. Results show that information entropies based on edge diversities could successfully describe the structural differences of road networks. This approach is a complementarity to current map information measurements, and can be extended to measure other kinds of geographical objects.

  20. Spiking modular neural networks: A neural network modeling approach for hydrological processes

    NASA Astrophysics Data System (ADS)

    Parasuraman, Kamban; Elshorbagy, Amin; Carey, Sean K.

    2006-05-01

    Artificial Neural Networks (ANNs) have been widely used for modeling hydrological processes that are embedded with high nonlinearity in both spatial and temporal scales. The input-output functional relationship does not remain the same over the entire modeling domain, varying at different spatial and temporal scales. In this study, a novel neural network model called the spiking modular neural networks (SMNNs) is proposed. An SMNN consists of an input layer, a spiking layer, and an associator neural network layer. The modular nature of the SMNN helps in finding domain-dependent relationships. The performance of the model is evaluated using two distinct case studies. The first case study is that of streamflow modeling, and the second case study involves modeling of eddy covariance-measured evapotranspiration. Two variants of SMNNs were analyzed in this study. The first variant employs a competitive layer as the spiking layer, and the second variant employs a self-organizing map as the spiking layer. The performance of SMNNs is compared to that of a regular feed forward neural network (FFNN) model. Results from the study demonstrate that SMNNs performed better than FFNNs for both the case studies. Results from partitioning analysis reveal that, compared to FFNNs, SMNNs are effective in capturing the dynamics of high flows. In modeling evapotranspiration, it is found that net radiation and ground temperature alone can be used to model the evaporation flux effectively. The SMNNs are shown to be effective in discretizing the complex mapping space into simpler domains that can be learned with relative ease.

  1. Construction of a gene-gene interaction network with a combined score across multiple approaches.

    PubMed

    Zhang, A M; Song, H; Shen, Y H; Liu, Y

    2015-01-01

    Recent progress in computational methods for inves-tigating physical and functional gene interactions has provided new insights into the complexity of biological processes. An essential part of these methods is presented visually in the form of gene interaction networks that can be valuable in exploring the mechanisms of disease. Here, a combined network based on gene pairs with an extra layer of re-liability was constructed after converting and combining the gene pair scores using a novel algorithm across multiple approaches. Four groups of kidney cancer data sets from ArrayExpress were downloaded and analyzed to identify differentially expressed genes using a rank prod-ucts analysis tool. Gene co-expression network, protein-protein interac-tion, co-occurrence network and a combined network were constructed using empirical Bayesian meta-analysis approach, Search Tool for the Retrieval of Interacting Genes/Proteins (STRING) database, an odds ratio formula of the cBioPortal for Cancer Genomics and a novel rank algorithm with combined score, respectively. The topological features of these networks were then compared to evaluate their performances. The results indicated that the gene pairs and their relationship rank-ings were not uniform. The values of topological parameters, such as clustering coefficient and the fitting coefficient R(2) of interaction net-work constructed using our ranked based combination score, were much greater than the other networks. The combined network had a classic small world property which transferred information quickly and displayed great resilience to the dysfunction of low-degree hubs with high-clustering and short average path length. It also followed distinct-ly a scale-free network with a higher reliability. PMID:26125911

  2. Analysis and models of bilateral investment treaties using a social networks approach

    NASA Astrophysics Data System (ADS)

    Saban, Daniela; Bonomo, Flavia; Stier-Moses, Nicolás E.

    2010-09-01

    Bilateral investment treaties (BITs) are agreements between two countries for the reciprocal encouragement, promotion and protection of investments in each other’s territories by companies based in either country. Germany and Pakistan signed the first BIT in 1959 and since then, BITs are one of the most popular and widespread form of international agreement. In this work we study the proliferation of BITs using a social networks approach. We propose a network growth model that dynamically replicates the empirical topological characteristics of the BIT network.

  3. Network Centric Approach to Protection, Control and Monitoring for Power Systems

    NASA Astrophysics Data System (ADS)

    Sekiguchi, Katsuhiko; Shirota, Yoshihiro; Shimoo, Manabu; Sugiura, Hideaki; Kagami, Toshiro; Nakamura, Tadashi

    Due to the explosion in use of the Internet, it is expected that a variety of services will be provided through the communication network in the near future. Protection and control systems using the latest communication and information technology also allow for innovative solution to a wide range of power system problems. This paper describes a network centric approach to protection, control and monitoring systems. When the proposed “Network” devices, server and browser can communicate with each other, they can share information which can enhance the overall protection and control of the power systems. The paper includes: overview of network devices, key technologies, protection and control applications, issues, conclusion.

  4. A Dynamic Bayesian Network Approach to Location Prediction in Ubiquitous Computing Environments

    NASA Astrophysics Data System (ADS)

    Lee, Sunyoung; Lee, Kun Chang; Cho, Heeryon

    The ability to predict the future contexts of users significantly improves service quality and user satisfaction in ubiquitous computing environments. Location prediction is particularly useful because ubiquitous computing environments can dynamically adapt their behaviors according to a user's future location. In this paper, we present an inductive approach to recognizing a user's location by establishing a dynamic Bayesian network model. The dynamic Bayesian network model has been evaluated with a set of contextual data collected from undergraduate students. The evaluation result suggests that a dynamic Bayesian network model offers significant predictive power.

  5. An evolutionary game approach for determination of the structural conflicts in signed networks

    NASA Astrophysics Data System (ADS)

    Tan, Shaolin; Lü, Jinhu

    2016-02-01

    Social or biochemical networks can often divide into two opposite alliances in response to structural conflicts between positive (friendly, activating) and negative (hostile, inhibiting) interactions. Yet, the underlying dynamics on how the opposite alliances are spontaneously formed to minimize the structural conflicts is still unclear. Here, we demonstrate that evolutionary game dynamics provides a felicitous possible tool to characterize the evolution and formation of alliances in signed networks. Indeed, an evolutionary game dynamics on signed networks is proposed such that each node can adaptively adjust its choice of alliances to maximize its own fitness, which yet leads to a minimization of the structural conflicts in the entire network. Numerical experiments show that the evolutionary game approach is universally efficient in quality and speed to find optimal solutions for all undirected or directed, unweighted or weighted signed networks. Moreover, the evolutionary game approach is inherently distributed. These characteristics thus suggest the evolutionary game dynamic approach as a feasible and effective tool for determining the structural conflicts in large-scale on-line signed networks.

  6. An evolutionary game approach for determination of the structural conflicts in signed networks

    PubMed Central

    Tan, Shaolin; Lü, Jinhu

    2016-01-01

    Social or biochemical networks can often divide into two opposite alliances in response to structural conflicts between positive (friendly, activating) and negative (hostile, inhibiting) interactions. Yet, the underlying dynamics on how the opposite alliances are spontaneously formed to minimize the structural conflicts is still unclear. Here, we demonstrate that evolutionary game dynamics provides a felicitous possible tool to characterize the evolution and formation of alliances in signed networks. Indeed, an evolutionary game dynamics on signed networks is proposed such that each node can adaptively adjust its choice of alliances to maximize its own fitness, which yet leads to a minimization of the structural conflicts in the entire network. Numerical experiments show that the evolutionary game approach is universally efficient in quality and speed to find optimal solutions for all undirected or directed, unweighted or weighted signed networks. Moreover, the evolutionary game approach is inherently distributed. These characteristics thus suggest the evolutionary game dynamic approach as a feasible and effective tool for determining the structural conflicts in large-scale on-line signed networks. PMID:26915581

  7. Designing optimal transportation networks: a knowledge-based computer-aided multicriteria approach

    SciTech Connect

    Tung, S.I.

    1986-01-01

    The dissertation investigates the applicability of using knowledge-based expert systems (KBES) approach to solve the single-mode (automobile), fixed-demand, discrete, multicriteria, equilibrium transportation-network-design problem. Previous works on this problem has found that mathematical programming method perform well on small networks with only one objective. Needed is a solution technique that can be used on large networks having multiple, conflicting criteria with different relative importance weights. The KBES approach developed in this dissertation represents a new way to solve network design problems. The development of an expert system involves three major tasks: knowledge acquisition, knowledge representation, and testing. For knowledge acquisition, a computer aided network design/evaluation model (UFOS) was developed to explore the design space. This study is limited to the problem of designing an optimal transportation network by adding and deleting capacity increments to/from any link in the network. Three weighted criteria were adopted for use in evaluating each design alternative: cost, average V/C ratio, and average travel time.

  8. A generative modeling approach to connectivity-Electrical conduction in vascular networks.

    PubMed

    Hald, Bjørn Olav

    2016-06-21

    The physiology of biological structures is inherently dynamic and emerges from the interaction and assembly of large collections of small entities. The extent of coupled entities complicates modeling and increases computational load. Here, microvascular networks are used to present a novel generative approach to connectivity based on the observation that biological organization is hierarchical and composed of a limited set of building blocks, i.e. a vascular network consists of blood vessels which in turn are composed by one or more cell types. Fast electrical communication is crucial to synchronize vessel tone across the vast distances within a network. We hypothesize that electrical conduction capacity is delimited by the size of vascular structures and connectivity of the network. Generation and simulation of series of dynamical models of electrical spread within vascular networks of different size and composition showed that (1) Conduction is enhanced in models harboring long and thin endothelial cells that couple preferentially along the longitudinal axis. (2) Conduction across a branch point depends on endothelial connectivity between branches. (3) Low connectivity sub-networks are more sensitive to electrical perturbations. In summary, the capacity for electrical signaling in microvascular networks is strongly shaped by the morphology and connectivity of vascular (particularly endothelial) cells. While the presented software can be used by itself or as a starting point for more sophisticated models of vascular dynamics, the generative approach can be applied to other biological systems, e.g. nervous tissue, the lymphatics, or the biliary system.

  9. A neural network approach to hippocampal function in classical conditioning.

    PubMed

    Schmajuk, N A; DiCarlo, J J

    1991-02-01

    Hippocampal participation in classical conditioning in terms of Grossberg's (1975) attentional theory is described. According to the present rendition of this theory, pairing of a conditioned stimulus (CS) with an unconditioned stimulus (US) causes both an association of the sensory representation of the CS with the US (conditioned reinforcement learning) and an association of the sensory representation of the CS with the drive representation of the US (incentive motivation learning). Sensory representations compete among themselves for a limited-capacity short-term memory (STM) that is reflected in a long-term memory storage. The STM regulation hypothesis, which proposes that the hippocampus controls incentive motivation, self-excitation, and competition among sensory representations thereby regulating the contents of a limited capacity STM, is introduced. Under the STM regulation hypothesis, nodes and connections in Grossberg's neural network are mapped onto regional hippocampal-cerebellar circuits. The resulting neural model provides (a) a framework for understanding the dynamics of information processing and storage in the hippocampus and cerebellum during classical conditioning of the rabbit's nictitating membrane, (b) principles for understanding the effect of different hippocampal manipulations on classical conditioning, and (c) numerous novel and testable predictions.

  10. A game theory approach to target tracking in sensor networks.

    PubMed

    Gu, Dongbing

    2011-02-01

    In this paper, we investigate a moving-target tracking problem with sensor networks. Each sensor node has a sensor to observe the target and a processor to estimate the target position. It also has wireless communication capability but with limited range and can only communicate with neighbors. The moving target is assumed to be an intelligent agent, which is "smart" enough to escape from the detection by maximizing the estimation error. This adversary behavior makes the target tracking problem more difficult. We formulate this target estimation problem as a zero-sum game in this paper and use a minimax filter to estimate the target position. The minimax filter is a robust filter that minimizes the estimation error by considering the worst case noise. Furthermore, we develop a distributed version of the minimax filter for multiple sensor nodes. The distributed computation is implemented via modeling the information received from neighbors as measurements in the minimax filter. The simulation results show that the target tracking algorithm proposed in this paper provides a satisfactory result. PMID:20194057

  11. Integrated Approach to Reconstruction of Microbial Regulatory Networks

    SciTech Connect

    Rodionov, Dmitry A; Novichkov, Pavel S

    2013-11-04

    This project had the goal(s) of development of integrated bioinformatics platform for genome-scale inference and visualization of transcriptional regulatory networks (TRNs) in bacterial genomes. The work was done in Sanford-Burnham Medical Research Institute (SBMRI, P.I. D.A. Rodionov) and Lawrence Berkeley National Laboratory (LBNL, co-P.I. P.S. Novichkov). The developed computational resources include: (1) RegPredict web-platform for TRN inference and regulon reconstruction in microbial genomes, and (2) RegPrecise database for collection, visualization and comparative analysis of transcriptional regulons reconstructed by comparative genomics. These analytical resources were selected as key components in the DOE Systems Biology KnowledgeBase (SBKB). The high-quality data accumulated in RegPrecise will provide essential datasets of reference regulons in diverse microbes to enable automatic reconstruction of draft TRNs in newly sequenced genomes. We outline our progress toward the three aims of this grant proposal, which were: Develop integrated platform for genome-scale regulon reconstruction; Infer regulatory annotations in several groups of bacteria and building of reference collections of microbial regulons; and Develop KnowledgeBase on microbial transcriptional regulation.

  12. Algebraic approach to small-world network models

    NASA Astrophysics Data System (ADS)

    Rudolph-Lilith, Michelle; Muller, Lyle E.

    2014-01-01

    We introduce an analytic model for directed Watts-Strogatz small-world graphs and deduce an algebraic expression of its defining adjacency matrix. The latter is then used to calculate the small-world digraph's asymmetry index and clustering coefficient in an analytically exact fashion, valid nonasymptotically for all graph sizes. The proposed approach is general and can be applied to all algebraically well-defined graph-theoretical measures, thus allowing for an analytical investigation of finite-size small-world graphs.

  13. Targeted revision: A learning-based approach for incremental community detection in dynamic networks

    NASA Astrophysics Data System (ADS)

    Shang, Jiaxing; Liu, Lianchen; Li, Xin; Xie, Feng; Wu, Cheng

    2016-02-01

    Community detection is a fundamental task in network analysis. Applications on massive dynamic networks require more efficient solutions and lead to incremental community detection, which revises the community assignments of new or changed vertices during network updates. In this paper, we propose to use machine learning classifiers to predict the vertices that need to be inspected for community assignment revision. This learning-based targeted revision (LBTR) approach aims to improve community detection efficiency by filtering out the unchanged vertices from unnecessary processing. In this paper, we design features that can be used for efficient target classification and analyze the time complexity of our framework. We conduct experiments on two real-world datasets, which show our LBTR approach significantly reduces the computational time while keeping a high community detection quality. Furthermore, as compared with the benchmarks, we find our approach's performance is stable on both growing networks and networks with vertex/edge removals. Experiments suggest that one should increase the target classification precision while keeping recall at a reasonable level when implementing our proposed approach. The study provides a unique perspective in incremental community detection.

  14. Metabolomics Approach Reveals Integrated Metabolic Network Associated with Serotonin Deficiency

    PubMed Central

    Weng, Rui; Shen, Sensen; Tian, Yonglu; Burton, Casey; Xu, Xinyuan; Liu, Yi; Chang, Cuilan; Bai, Yu; Liu, Huwei

    2015-01-01

    Serotonin is an important neurotransmitter that broadly participates in various biological processes. While serotonin deficiency has been associated with multiple pathological conditions such as depression, schizophrenia, Alzheimer’s disease and Parkinson’s disease, the serotonin-dependent mechanisms remain poorly understood. This study therefore aimed to identify novel biomarkers and metabolic pathways perturbed by serotonin deficiency using metabolomics approach in order to gain new metabolic insights into the serotonin deficiency-related molecular mechanisms. Serotonin deficiency was achieved through pharmacological inhibition of tryptophan hydroxylase (Tph) using p-chlorophenylalanine (pCPA) or genetic knockout of the neuronal specific Tph2 isoform. This dual approach improved specificity for the serotonin deficiency-associated biomarkers while minimizing nonspecific effects of pCPA treatment or Tph2 knockout (Tph2-/-). Non-targeted metabolic profiling and a targeted pCPA dose-response study identified 21 biomarkers in the pCPA-treated mice while 17 metabolites in the Tph2-/- mice were found to be significantly altered compared with the control mice. These newly identified biomarkers were associated with amino acid, energy, purine, lipid and gut microflora metabolisms. Oxidative stress was also found to be significantly increased in the serotonin deficient mice. These new biomarkers and the overall metabolic pathways may provide new understanding for the serotonin deficiency-associated mechanisms under multiple pathological states. PMID:26154191

  15. Metabolomics Approach Reveals Integrated Metabolic Network Associated with Serotonin Deficiency

    NASA Astrophysics Data System (ADS)

    Weng, Rui; Shen, Sensen; Tian, Yonglu; Burton, Casey; Xu, Xinyuan; Liu, Yi; Chang, Cuilan; Bai, Yu; Liu, Huwei

    2015-07-01

    Serotonin is an important neurotransmitter that broadly participates in various biological processes. While serotonin deficiency has been associated with multiple pathological conditions such as depression, schizophrenia, Alzheimer’s disease and Parkinson’s disease, the serotonin-dependent mechanisms remain poorly understood. This study therefore aimed to identify novel biomarkers and metabolic pathways perturbed by serotonin deficiency using metabolomics approach in order to gain new metabolic insights into the serotonin deficiency-related molecular mechanisms. Serotonin deficiency was achieved through pharmacological inhibition of tryptophan hydroxylase (Tph) using p-chlorophenylalanine (pCPA) or genetic knockout of the neuronal specific Tph2 isoform. This dual approach improved specificity for the serotonin deficiency-associated biomarkers while minimizing nonspecific effects of pCPA treatment or Tph2 knockout (Tph2-/-). Non-targeted metabolic profiling and a targeted pCPA dose-response study identified 21 biomarkers in the pCPA-treated mice while 17 metabolites in the Tph2-/- mice were found to be significantly altered compared with the control mice. These newly identified biomarkers were associated with amino acid, energy, purine, lipid and gut microflora metabolisms. Oxidative stress was also found to be significantly increased in the serotonin deficient mice. These new biomarkers and the overall metabolic pathways may provide new understanding for the serotonin deficiency-associated mechanisms under multiple pathological states.

  16. Multi-level security for computer networking: SAC digital network approach

    SciTech Connect

    Griess, W.; Poutre, D.L.

    1983-10-01

    For telecommunications systems simultaneously handling data of different security levels, multilevel secure (MLS) operation permits maximum use of resources by automatically providing protection to users with various clearances and needs-to-know. The strategic air command (SAC) is upgrading the primary record data system used to command and control its strategic forces. The upgrade, called the SAC Digital Network (SACDIN), is designed to provide multilevel security to support users and external interfaces, with allowed accesses ranging from unclassified to top secret. SACDIN implements a security kernel based upon the Bell and Lapadula security model. This study presents an overview of the SACDIN security architecture and describes the basic message flow across the MLS network. 7 references.

  17. Seasonal Nitrogen Dynamics in Chesapeake Bay: a Network Approach

    NASA Astrophysics Data System (ADS)

    Baird, D.; Ulanowicz, R. E.; Boynton, W. R.

    1995-08-01

    The input, exchange, recycling and export of nitrogen in the mesohaline region of Chesapeake Bay have been assessed in this study. The seasonal rate of exchanges between the 36 most important components and the roles of these in the recycling process of nitrogen in the ecosystem have been quantified. Results show that the demand for nitrogen by phytoplankton, bacteria and benthic algae is the highest in summer (418 mg N m -2day -1) and lowest in winter (90 mg N m -2day -1). The supply of dissolved nitrogen however, is highest in spring (289 mg N m -2day -1), with the lowest exogenous supply of 'new' nitrogen during summer (53 mg N m -2day -1). The seasonal variations in supply and demand suggest that spring nitrogen loadings continue to sustain the high nitrogen demand in summer when this nutrient appears to be in short supply. Results also show that the efflux of nitrogen from the sediments to the overlying water dominates the recycling process and is abetted by water column regeneration, mostly by the smaller biota (<200 μm). Mesozooplankton, suspension-feeders and fish as a whole contribute relatively little on a seasonal or annual basis to the total amount of regenerated nitrogen. Network analysis of the seasonal dynamics of nitrogen indicates that the pathways over which nitrogen is recycled are considerably more complicated and numerous than those which retain carbon in the system. The Finn Cycling Index (FCI) reveals that the rate of nitrogen recycling during summer approximates 70% of the total system activity compared with the 34-46% range during other seasons. In contrast, the FCI for carbon was almost a constant 20% over all seasons. As regards the pelagic microbiota, which functionated more as a shunt to convey excess carbon out of the system, analysis indicates they comprise very significant pathways for the retention of nitrogen in the system.

  18. Adaptive Critic Neural Network-Based Terminal Area Energy Management and Approach and Landing Guidance

    NASA Technical Reports Server (NTRS)

    Grantham, Katie

    2003-01-01

    Reusable Launch Vehicles (RLVs) have different mission requirements than the Space Shuttle, which is used for benchmark guidance design. Therefore, alternative Terminal Area Energy Management (TAEM) and Approach and Landing (A/L) Guidance schemes can be examined in the interest of cost reduction. A neural network based solution for a finite horizon trajectory optimization problem is presented in this paper. In this approach the optimal trajectory of the vehicle is produced by adaptive critic based neural networks, which were trained off-line to maintain a gradual glideslope.

  19. A network approach to psychopathology: new insights into clinical longitudinal data.

    PubMed

    Bringmann, Laura F; Vissers, Nathalie; Wichers, Marieke; Geschwind, Nicole; Kuppens, Peter; Peeters, Frenk; Borsboom, Denny; Tuerlinckx, Francis

    2013-01-01

    In the network approach to psychopathology, disorders are conceptualized as networks of mutually interacting symptoms (e.g., depressed mood) and transdiagnostic factors (e.g., rumination). This suggests that it is necessary to study how symptoms dynamically interact over time in a network architecture. In the present paper, we show how such an architecture can be constructed on the basis of time-series data obtained through Experience Sampling Methodology (ESM). The proposed methodology determines the parameters for the interaction between nodes in the network by estimating a multilevel vector autoregression (VAR) model on the data. The methodology allows combining between-subject and within-subject information in a multilevel framework. The resulting network architecture can subsequently be analyzed through network analysis techniques. In the present study, we apply the method to a set of items that assess mood-related factors. We show that the analysis generates a plausible and replicable network architecture, the structure of which is related to variables such as neuroticism; that is, for subjects who score high on neuroticism, worrying plays a more central role in the network. Implications and extensions of the methodology are discussed.

  20. The network approach and interventions to prevent HIV among injection drug users.

    PubMed Central

    Neaigus, A

    1998-01-01

    OBJECTIVE: To review human immunodeficiency virus (HIV) risk reduction interventions among injecting drug users (IDUs) that have adopted a network approach. METHODS: The design and outcomes of selected network-based interventions among IDUs are reviewed using the network concepts of the dyad (two-person relationship), the personal risk network (an index person and all of his or her relationship), and the "sociometric" network (the complete set of relations between people in a population) and community. RESULTS: In a dyad intervention among HIV-serodiscordant couples, many of which included IDUs, there were no HIV seroconversions. Participants in personal risk network interventions were more likely to reduce drug risks and in some of these interventions, sexual risks, than were participants in individual-based interventions. Sociometric network interventions reached more IDUs and may be more cost-effective than individual-based interventions. CONCLUSION: Network-based HIV risk reduction interventions among IDUs, and others at risk for HIV, hold promise and should be encouraged. PMID:9722819

  1. Modeling and controlling the two-phase dynamics of the p53 network: a Boolean network approach

    NASA Astrophysics Data System (ADS)

    Lin, Guo-Qiang; Ao, Bin; Chen, Jia-Wei; Wang, Wen-Xu; Di, Zeng-Ru

    2014-12-01

    Although much empirical evidence has demonstrated that p53 plays a key role in tumor suppression, the dynamics and function of the regulatory network centered on p53 have not yet been fully understood. Here, we develop a Boolean network model to reproduce the two-phase dynamics of the p53 network in response to DNA damage. In particular, we map the fates of cells into two types of Boolean attractors, and we find that the apoptosis attractor does not exist for minor DNA damage, reflecting that the cell is reparable. As the amount of DNA damage increases, the basin of the repair attractor shrinks, accompanied by the rising of the apoptosis attractor and the expansion of its basin, indicating that the cell becomes more irreparable with more DNA damage. For severe DNA damage, the repair attractor vanishes, and the apoptosis attractor dominates the state space, accounting for the exclusive fate of death. Based on the Boolean network model, we explore the significance of links, in terms of the sensitivity of the two-phase dynamics, to perturbing the weights of links and removing them. We find that the links are either critical or ordinary, rather than redundant. This implies that the p53 network is irreducible, but tolerant of small mutations at some ordinary links, and this can be interpreted with evolutionary theory. We further devised practical control schemes for steering the system into the apoptosis attractor in the presence of DNA damage by pinning the state of a single node or perturbing the weight of a single link. Our approach offers insights into understanding and controlling the p53 network, which is of paramount importance for medical treatment and genetic engineering.

  2. Output-only modal analysis approach for time-unsynchronization signals in wireless sensor network

    NASA Astrophysics Data System (ADS)

    Park, Jae-Hyung; Kim, Jeong-Tae; Na, Won-Bae; Woo, Jinho

    2009-03-01

    In this study, an output-only modal analysis approach for wireless sensor nodes is proposed on the basis of assumption that a target structure is a linear system. In order to achieve the objective, the following approaches are implemented. Firstly, an output-only modal analysis method is selected for the wireless sensor networks. Secondly, the effect of time unsynchronization on the modal analysis method is mathematically derived. Thirdly, a new modal analysis approach using complex mode-shapes is proposed to extract modal parameters from unsynchronized signals. Finally, the proposed approach is evaluated by numerical tests and experimental tests.

  3. Communication, Collaboration and Cooperation: An Evaluation of Nova Scotia's Borrow Anywhere, Return Anywhere (BARA) Multi-Type Library Initiative

    ERIC Educational Resources Information Center

    van den Hoogen, Suzanne; Parrott, Denise

    2012-01-01

    Partnerships and collaborations among libraries are proven to enhance collective resources. The collaboration of multi-type libraries offers a unique opportunity to explore the potential of different libraries working together to provide the best possible service to their community members. This article provides a detailed report of a multi-type…

  4. Infrared and multi-type images fusion algorithm based on contrast pyramid transform

    NASA Astrophysics Data System (ADS)

    Xu, Hua; Wang, Yan; Wu, Yujing; Qian, Yunsheng

    2016-09-01

    A fusion algorithm for infrared and multi-type images based on contrast pyramid transform (CPT) combined with Otsu method and morphology is proposed in this paper. Firstly, two sharpened images are combined to the first fused image based on information entropy weighted scheme. Afterwards, two enhanced images and the first fused one are decomposed into a series of images with different dimensions and spatial frequencies. To the low-frequency layer, the Otsu method is applied to calculate the optimal segmentation threshold of the first fused image, which is subsequently used to determine the pixel values in top layer fused image. With respect to the high-frequency layers, the top-bottom hats morphological transform is employed to each layer before maximum selection criterion. Finally, the series of decomposed images are reconstructed and then superposed with the enhanced image processed by morphological gradient operation as a second fusion to get the final fusion image. Infrared and visible images fusion, infrared and low-light-level (LLL) images fusion, infrared intensity and infrared polarization images fusion, and multi-focus images fusion are discussed in this paper. Both experimental results and objective metrics demonstrate the effectiveness and superiority of the proposed algorithm over the conventional ones used to compare.

  5. Trend Motif: A Graph Mining Approach for Analysis of Dynamic Complex Networks

    SciTech Connect

    Jin, R; McCallen, S; Almaas, E

    2007-05-28

    Complex networks have been used successfully in scientific disciplines ranging from sociology to microbiology to describe systems of interacting units. Until recently, studies of complex networks have mainly focused on their network topology. However, in many real world applications, the edges and vertices have associated attributes that are frequently represented as vertex or edge weights. Furthermore, these weights are often not static, instead changing with time and forming a time series. Hence, to fully understand the dynamics of the complex network, we have to consider both network topology and related time series data. In this work, we propose a motif mining approach to identify trend motifs for such purposes. Simply stated, a trend motif describes a recurring subgraph where each of its vertices or edges displays similar dynamics over a userdefined period. Given this, each trend motif occurrence can help reveal significant events in a complex system; frequent trend motifs may aid in uncovering dynamic rules of change for the system, and the distribution of trend motifs may characterize the global dynamics of the system. Here, we have developed efficient mining algorithms to extract trend motifs. Our experimental validation using three disparate empirical datasets, ranging from the stock market, world trade, to a protein interaction network, has demonstrated the efficiency and effectiveness of our approach.

  6. Hybrid Evolutionary Approaches to Maximum Lifetime Routing and Energy Efficiency in Sensor Mesh Networks.

    PubMed

    Rahat, Alma A M; Everson, Richard M; Fieldsend, Jonathan E

    2015-01-01

    Mesh network topologies are becoming increasingly popular in battery-powered wireless sensor networks, primarily because of the extension of network range. However, multihop mesh networks suffer from higher energy costs, and the routing strategy employed directly affects the lifetime of nodes with limited energy resources. Hence when planning routes there are trade-offs to be considered between individual and system-wide battery lifetimes. We present a multiobjective routing optimisation approach using hybrid evolutionary algorithms to approximate the optimal trade-off between the minimum lifetime and the average lifetime of nodes in the network. In order to accomplish this combinatorial optimisation rapidly, our approach prunes the search space using k-shortest path pruning and a graph reduction method that finds candidate routes promoting long minimum lifetimes. When arbitrarily many routes from a node to the base station are permitted, optimal routes may be found as the solution to a well-known linear program. We present an evolutionary algorithm that finds good routes when each node is allowed only a small number of paths to the base station. On a real network deployed in the Victoria & Albert Museum, London, these solutions, using only three paths per node, are able to achieve minimum lifetimes of over 99% of the optimum linear program solution's time to first sensor battery failure. PMID:25950392

  7. Hybrid Evolutionary Approaches to Maximum Lifetime Routing and Energy Efficiency in Sensor Mesh Networks.

    PubMed

    Rahat, Alma A M; Everson, Richard M; Fieldsend, Jonathan E

    2015-01-01

    Mesh network topologies are becoming increasingly popular in battery-powered wireless sensor networks, primarily because of the extension of network range. However, multihop mesh networks suffer from higher energy costs, and the routing strategy employed directly affects the lifetime of nodes with limited energy resources. Hence when planning routes there are trade-offs to be considered between individual and system-wide battery lifetimes. We present a multiobjective routing optimisation approach using hybrid evolutionary algorithms to approximate the optimal trade-off between the minimum lifetime and the average lifetime of nodes in the network. In order to accomplish this combinatorial optimisation rapidly, our approach prunes the search space using k-shortest path pruning and a graph reduction method that finds candidate routes promoting long minimum lifetimes. When arbitrarily many routes from a node to the base station are permitted, optimal routes may be found as the solution to a well-known linear program. We present an evolutionary algorithm that finds good routes when each node is allowed only a small number of paths to the base station. On a real network deployed in the Victoria & Albert Museum, London, these solutions, using only three paths per node, are able to achieve minimum lifetimes of over 99% of the optimum linear program solution's time to first sensor battery failure.

  8. An Approach to Integrated Spectrum Efficient Network Enhanced Telemetry (iSENET))

    NASA Technical Reports Server (NTRS)

    Okino, Clayton; Gao, Jay; Clare, Loren; Darden, Scott; Walsh, William; Loh, Kok-kiong

    2006-01-01

    As the integrated Network Enhanced Telemetry (iNET) program moves forward in resolving systems engineering design and architecture definition, critical technology "gaps" and a migration path to realizing the integration of this technology are needed to insure a smooth transition from the current legacy point to point telemetry links to a network oriented telemetry system. Specifically, identified by the DoD aeronautical telemetry community is the need for a migration to a network solution for command, control, and transfer of test data by optimizing the physical, data link, and network layers. In this paper, we present a network-centric telemetry approach based on variants of 802.11 that leverages the open standards as well as the previous Advanced Range Telemetry (ARTM) work on the physical layer waveform. Specifically, we present a burst modem approach based on the recent AOFDM 802.11a work, a TDMA-like MAC layer approach based on 802.11e, and then add additional MAC layer features to allow for the multi-hop aeronautical environment using a variant of the current working standards of 802.11s. The combined benefits of the variants obtained from 802.11a, 802.11e, and 802.11s address the needs for both spectrum efficiency in the aeronautical environment and the iNET program.

  9. Teaching the bioinformatics of signaling networks: an integrated approach to facilitate multi-disciplinary learning.

    PubMed

    Korcsmaros, Tamas; Dunai, Zsuzsanna A; Vellai, Tibor; Csermely, Peter

    2013-09-01

    The number of bioinformatics tools and resources that support molecular and cell biology approaches is continuously expanding. Moreover, systems and network biology analyses are accompanied more and more by integrated bioinformatics methods. Traditional information-centered university teaching methods often fail, as (1) it is impossible to cover all existing approaches in the frame of a single course, and (2) a large segment of the current bioinformation can become obsolete in a few years. Signaling network offers an excellent example for teaching bioinformatics resources and tools, as it is both focused and complex at the same time. Here, we present an outline of a university bioinformatics course with four sample practices to demonstrate how signaling network studies can integrate biochemistry, genetics, cell biology and network sciences. We show that several bioinformatics resources and tools, as well as important concepts and current trends, can also be integrated to signaling network studies. The research-type hands-on experiences we show enable the students to improve key competences such as teamworking, creative and critical thinking and problem solving. Our classroom course curriculum can be re-formulated as an e-learning material or applied as a part of a specific training course. The multi-disciplinary approach and the mosaic setup of the course have the additional benefit to support the advanced teaching of talented students.

  10. A new collaborative knowledge-based approach for wireless sensor networks.

    PubMed

    Canada-Bago, Joaquin; Fernandez-Prieto, Jose Angel; Gadeo-Martos, Manuel Angel; Velasco, Juan Ramón

    2010-01-01

    This work presents a new approach for collaboration among sensors in Wireless Sensor Networks. These networks are composed of a large number of sensor nodes with constrained resources: limited computational capability, memory, power sources, etc. Nowadays, there is a growing interest in the integration of Soft Computing technologies into Wireless Sensor Networks. However, little attention has been paid to integrating Fuzzy Rule-Based Systems into collaborative Wireless Sensor Networks. The objective of this work is to design a collaborative knowledge-based network, in which each sensor executes an adapted Fuzzy Rule-Based System, which presents significant advantages such as: experts can define interpretable knowledge with uncertainty and imprecision, collaborative knowledge can be separated from control or modeling knowledge and the collaborative approach may support neighbor sensor failures and communication errors. As a real-world application of this approach, we demonstrate a collaborative modeling system for pests, in which an alarm about the development of olive tree fly is inferred. The results show that knowledge-based sensors are suitable for a wide range of applications and that the behavior of a knowledge-based sensor may be modified by inferences and knowledge of neighbor sensors in order to obtain a more accurate and reliable output.

  11. Characterising brain network topologies: A dynamic analysis approach using heat kernels.

    PubMed

    Chung, A W; Schirmer, M D; Krishnan, M L; Ball, G; Aljabar, P; Edwards, A D; Montana, G

    2016-11-01

    Network theory provides a principled abstraction of the human brain: reducing a complex system into a simpler representation from which to investigate brain organisation. Recent advancement in the neuroimaging field is towards representing brain connectivity as a dynamic process in order to gain a deeper understanding of how the brain is organised for information transport. In this paper we propose a network modelling approach based on the heat kernel to capture the process of heat diffusion in complex networks. By applying the heat kernel to structural brain networks, we define new features which quantify change in heat propagation. Identifying suitable features which can classify networks between cohorts is useful towards understanding the effect of disease on brain architecture. We demonstrate the discriminative power of heat kernel features in both synthetic and clinical preterm data. By generating an extensive range of synthetic networks with varying density and randomisation, we investigate heat diffusion in relation to changes in network topology. We demonstrate that our proposed features provide a metric of network efficiency and may be indicative of organisational principles commonly associated with, for example, small-world architecture. In addition, we show the potential of these features to characterise and classify between network topologies. We further demonstrate our methodology in a clinical setting by applying it to a large cohort of preterm babies scanned at term equivalent age from which diffusion networks were computed. We show that our heat kernel features are able to successfully predict motor function measured at two years of age (sensitivity, specificity, F-score, accuracy = 75.0, 82.5, 78.6, and 82.3%, respectively).

  12. Characterising brain network topologies: A dynamic analysis approach using heat kernels.

    PubMed

    Chung, A W; Schirmer, M D; Krishnan, M L; Ball, G; Aljabar, P; Edwards, A D; Montana, G

    2016-11-01

    Network theory provides a principled abstraction of the human brain: reducing a complex system into a simpler representation from which to investigate brain organisation. Recent advancement in the neuroimaging field is towards representing brain connectivity as a dynamic process in order to gain a deeper understanding of how the brain is organised for information transport. In this paper we propose a network modelling approach based on the heat kernel to capture the process of heat diffusion in complex networks. By applying the heat kernel to structural brain networks, we define new features which quantify change in heat propagation. Identifying suitable features which can classify networks between cohorts is useful towards understanding the effect of disease on brain architecture. We demonstrate the discriminative power of heat kernel features in both synthetic and clinical preterm data. By generating an extensive range of synthetic networks with varying density and randomisation, we investigate heat diffusion in relation to changes in network topology. We demonstrate that our proposed features provide a metric of network efficiency and may be indicative of organisational principles commonly associated with, for example, small-world architecture. In addition, we show the potential of these features to characterise and classify between network topologies. We further demonstrate our methodology in a clinical setting by applying it to a large cohort of preterm babies scanned at term equivalent age from which diffusion networks were computed. We show that our heat kernel features are able to successfully predict motor function measured at two years of age (sensitivity, specificity, F-score, accuracy = 75.0, 82.5, 78.6, and 82.3%, respectively). PMID:27421183

  13. Modeling approaches for qualitative and semi-quantitative analysis of cellular signaling networks

    PubMed Central

    2013-01-01

    A central goal of systems biology is the construction of predictive models of bio-molecular networks. Cellular networks of moderate size have been modeled successfully in a quantitative way based on differential equations. However, in large-scale networks, knowledge of mechanistic details and kinetic parameters is often too limited to allow for the set-up of predictive quantitative models. Here, we review methodologies for qualitative and semi-quantitative modeling of cellular signal transduction networks. In particular, we focus on three different but related formalisms facilitating modeling of signaling processes with different levels of detail: interaction graphs, logical/Boolean networks, and logic-based ordinary differential equations (ODEs). Albeit the simplest models possible, interaction graphs allow the identification of important network properties such as signaling paths, feedback loops, or global interdependencies. Logical or Boolean models can be derived from interaction graphs by constraining the logical combination of edges. Logical models can be used to study the basic input–output behavior of the system under investigation and to analyze its qualitative dynamic properties by discrete simulations. They also provide a suitable framework to identify proper intervention strategies enforcing or repressing certain behaviors. Finally, as a third formalism, Boolean networks can be transformed into logic-based ODEs enabling studies on essential quantitative and dynamic features of a signaling network, where time and states are continuous. We describe and illustrate key methods and applications of the different modeling formalisms and discuss their relationships. In particular, as one important aspect for model reuse, we will show how these three modeling approaches can be combined to a modeling pipeline (or model hierarchy) allowing one to start with the simplest representation of a signaling network (interaction graph), which can later be refined to

  14. Modeling approaches for qualitative and semi-quantitative analysis of cellular signaling networks.

    PubMed

    Samaga, Regina; Klamt, Steffen

    2013-01-01

    A central goal of systems biology is the construction of predictive models of bio-molecular networks. Cellular networks of moderate size have been modeled successfully in a quantitative way based on differential equations. However, in large-scale networks, knowledge of mechanistic details and kinetic parameters is often too limited to allow for the set-up of predictive quantitative models.Here, we review methodologies for qualitative and semi-quantitative modeling of cellular signal transduction networks. In particular, we focus on three different but related formalisms facilitating modeling of signaling processes with different levels of detail: interaction graphs, logical/Boolean networks, and logic-based ordinary differential equations (ODEs). Albeit the simplest models possible, interaction graphs allow the identification of important network properties such as signaling paths, feedback loops, or global interdependencies. Logical or Boolean models can be derived from interaction graphs by constraining the logical combination of edges. Logical models can be used to study the basic input-output behavior of the system under investigation and to analyze its qualitative dynamic properties by discrete simulations. They also provide a suitable framework to identify proper intervention strategies enforcing or repressing certain behaviors. Finally, as a third formalism, Boolean networks can be transformed into logic-based ODEs enabling studies on essential quantitative and dynamic features of a signaling network, where time and states are continuous.We describe and illustrate key methods and applications of the different modeling formalisms and discuss their relationships. In particular, as one important aspect for model reuse, we will show how these three modeling approaches can be combined to a modeling pipeline (or model hierarchy) allowing one to start with the simplest representation of a signaling network (interaction graph), which can later be refined to logical

  15. A neural-network approach to nonparametric and robust classification procedures.

    PubMed

    Voudouri-Maniati, E; Kurz, L; Kowalski, J M

    1997-01-01

    In this paper algorithms of neural-network type are introduced for solving estimation and classification problems when assumptions about independence, Gaussianity, and stationarity of the observation samples are no longer valid. Specifically, the asymptotic normality of several nonparametric classification tests is demonstrated and their implementation using a neural-network approach is presented. Initially, the neural nets train themselves via learning samples for nominal noise and alternative hypotheses distributions resulting in near optimum performance in a particular stochastic environment. In other than the nominal environments, however, high efficiency is maintained by adapting the optimum nonlinearities to changing conditions during operation via parallel networks, without disturbing the classification process. Furthermore, the superiority in performance of the proposed networks over more traditional neural nets is demonstrated in an application involving pattern recognition.

  16. Using a hybrid approach to optimize experimental network design for aquifer parameter identification.

    PubMed

    Chang, Liang-Cheng; Chu, Hone-Jay; Lin, Yu-Pin; Chen, Yu-Wen

    2010-10-01

    This research develops an optimum design model of groundwater network using genetic algorithm (GA) and modified Newton approach, based on the experimental design conception. The goal of experiment design is to minimize parameter uncertainty, represented by the covariance matrix determinant of estimated parameters. The design problem is constrained by a specified cost and solved by GA and a parameter identification model. The latter estimates optimum parameter value and its associated sensitivity matrices. The general problem is simplified into two classes of network design problems: an observation network design problem and a pumping network design problem. Results explore the relationship between the experimental design and the physical processes. The proposed model provides an alternative to solve optimization problems for groundwater experimental design. PMID:19757116

  17. The Impact of the Network Topology on the Viral Prevalence: A Node-Based Approach

    PubMed Central

    Yang, Lu-Xing; Draief, Moez; Yang, Xiaofan

    2015-01-01

    This paper addresses the impact of the structure of the viral propagation network on the viral prevalence. For that purpose, a new epidemic model of computer virus, known as the node-based SLBS model, is proposed. Our analysis shows that the maximum eigenvalue of the underlying network is a key factor determining the viral prevalence. Specifically, the value range of the maximum eigenvalue is partitioned into three subintervals: viruses tend to extinction very quickly or approach extinction or persist depending on into which subinterval the maximum eigenvalue of the propagation network falls. Consequently, computer virus can be contained by adjusting the propagation network so that its maximum eigenvalue falls into the desired subinterval. PMID:26222539

  18. Identifying Overlapping and Hierarchical Thematic Structures in Networks of Scholarly Papers: A Comparison of Three Approaches

    PubMed Central

    Havemann, Frank; Gläser, Jochen; Heinz, Michael; Struck, Alexander

    2012-01-01

    The aim of this paper is to introduce and assess three algorithms for the identification of overlapping thematic structures in networks of papers. We implemented three recently proposed approaches to the identification of overlapping and hierarchical substructures in graphs and applied the corresponding algorithms to a network of 492 information-science papers coupled via their cited sources. The thematic substructures obtained and overlaps produced by the three hierarchical cluster algorithms were compared to a content-based categorisation, which we based on the interpretation of titles, abstracts, and keywords. We defined sets of papers dealing with three topics located on different levels of aggregation: h-index, webometrics, and bibliometrics. We identified these topics with branches in the dendrograms produced by the three cluster algorithms and compared the overlapping topics they detected with one another and with the three predefined paper sets. We discuss the advantages and drawbacks of applying the three approaches to paper networks in research fields. PMID:22479376

  19. Multimodal signalling in the North American barn swallow: a phenotype network approach

    PubMed Central

    Wilkins, Matthew R.; Shizuka, Daizaburo; Joseph, Maxwell B.; Hubbard, Joanna K.; Safran, Rebecca J.

    2015-01-01

    Complex signals, involving multiple components within and across modalities, are common in animal communication. However, decomposing complex signals into traits and their interactions remains a fundamental challenge for studies of phenotype evolution. We apply a novel phenotype network approach for studying complex signal evolution in the North American barn swallow (Hirundo rustica erythrogaster). We integrate model testing with correlation-based phenotype networks to infer the contributions of female mate choice and male–male competition to the evolution of barn swallow communication. Overall, the best predictors of mate choice were distinct from those for competition, while moderate functional overlap suggests males and females use some of the same traits to assess potential mates and rivals. We interpret model results in the context of a network of traits, and suggest this approach allows researchers a more nuanced view of trait clustering patterns that informs new hypotheses about the evolution of communication systems. PMID:26423842

  20. Multimodal signalling in the North American barn swallow: a phenotype network approach.

    PubMed

    Wilkins, Matthew R; Shizuka, Daizaburo; Joseph, Maxwell B; Hubbard, Joanna K; Safran, Rebecca J

    2015-10-01

    Complex signals, involving multiple components within and across modalities, are common in animal communication. However, decomposing complex signals into traits and their interactions remains a fundamental challenge for studies of phenotype evolution. We apply a novel phenotype network approach for studying complex signal evolution in the North American barn swallow (Hirundo rustica erythrogaster). We integrate model testing with correlation-based phenotype networks to infer the contributions of female mate choice and male-male competition to the evolution of barn swallow communication. Overall, the best predictors of mate choice were distinct from those for competition, while moderate functional overlap suggests males and females use some of the same traits to assess potential mates and rivals. We interpret model results in the context of a network of traits, and suggest this approach allows researchers a more nuanced view of trait clustering patterns that informs new hypotheses about the evolution of communication systems.

  1. Compression approach of street networks considering the structural and functional features of streets

    NASA Astrophysics Data System (ADS)

    Liu, Gang; He, Jing; Zhang, Xiping

    2015-10-01

    The compression of networks is an important aspect of complex networks and spatial generalization. Previous studies show that the dual graph for street-street relationships more accurately reflects the morphological features of street networks than the traditional methods. In this study, a dual graph for street-street relationship is constructed based on complex networks theory. We introduce the concept of m-order neighbors and take into account the factors of the node’s degree, closeness centrality, betweenness centrality, and distance within the dual graph. We also consider the importance contributions of the node itself and its 1- to m-order neighbors and define the evaluation model of node importance. We then propose a street compression process based on the evaluation of node importance for dual graph by considering the structural and functional features of streets. The degree distribution and topological similarity index are introduced to evaluate the level of maintaining the global structure and topological characteristics of the road network and to validate the efficiency of the proposed method. A real urban road network is used for the experiments. Results show that the proposed approach can be used in selecting important streets that can retain the global structural properties and topological connectivity of the street network.

  2. A Deep Learning Network Approach to ab initio Protein Secondary Structure Prediction

    PubMed Central

    Spencer, Matt; Eickholt, Jesse; Cheng, Jianlin

    2014-01-01

    Ab initio protein secondary structure (SS) predictions are utilized to generate tertiary structure predictions, which are increasingly demanded due to the rapid discovery of proteins. Although recent developments have slightly exceeded previous methods of SS prediction, accuracy has stagnated around 80% and many wonder if prediction cannot be advanced beyond this ceiling. Disciplines that have traditionally employed neural networks are experimenting with novel deep learning techniques in attempts to stimulate progress. Since neural networks have historically played an important role in SS prediction, we wanted to determine whether deep learning could contribute to the advancement of this field as well. We developed an SS predictor that makes use of the position-specific scoring matrix generated by PSI-BLAST and deep learning network architectures, which we call DNSS. Graphical processing units and CUDA software optimize the deep network architecture and efficiently train the deep networks. Optimal parameters for the training process were determined, and a workflow comprising three separately trained deep networks was constructed in order to make refined predictions. This deep learning network approach was used to predict SS for a fully independent test data set of 198 proteins, achieving a Q3 accuracy of 80.7% and a Sov accuracy of 74.2%. PMID:25750595

  3. A Digital Network Approach to Infer Sex Behavior in Emerging HIV Epidemics

    PubMed Central

    Schneider, John A.; Heard, Daniel; Mukherjee, Sayan; Schumm, Phil; Oruganti, Ganesh; Laumann, Edward O.

    2014-01-01

    Purpose Improve the ability to infer sex behaviors more accurately using network data. Methods A hybrid network analytic approach was utilized to integrate: (1) the plurality of reports from others tied to individual(s) of interest; and (2) structural features of the network generated from those ties. Network data was generated from digitally extracted cell-phone contact lists of a purposeful sample of 241 high-risk men in India. These data were integrated with interview responses to describe the corresponding individuals in the contact lists and the ties between them. HIV serostatus was collected for each respondent and served as an internal validation of the model’s predictions of sex behavior. Results We found that network-based model predictions of sex behavior and self-reported sex behavior had limited correlation (54% agreement). Additionally, when respondent sex behaviors were re-classified to network model predictions from self-reported data, there was a 30.7% decrease in HIV seroprevalence among groups of men with lower risk behavior, which is consistent with HIV transmission biology. Conclusion Combining the relative completeness and objectivity of digital network data with the substantive details of classical interview and HIV biomarker data permitted new analyses and insights into the accuracy of self-reported sex behavior. PMID:24992340

  4. A Deep Learning Network Approach to ab initio Protein Secondary Structure Prediction.

    PubMed

    Spencer, Matt; Eickholt, Jesse; Jianlin Cheng

    2015-01-01

    Ab initio protein secondary structure (SS) predictions are utilized to generate tertiary structure predictions, which are increasingly demanded due to the rapid discovery of proteins. Although recent developments have slightly exceeded previous methods of SS prediction, accuracy has stagnated around 80 percent and many wonder if prediction cannot be advanced beyond this ceiling. Disciplines that have traditionally employed neural networks are experimenting with novel deep learning techniques in attempts to stimulate progress. Since neural networks have historically played an important role in SS prediction, we wanted to determine whether deep learning could contribute to the advancement of this field as well. We developed an SS predictor that makes use of the position-specific scoring matrix generated by PSI-BLAST and deep learning network architectures, which we call DNSS. Graphical processing units and CUDA software optimize the deep network architecture and efficiently train the deep networks. Optimal parameters for the training process were determined, and a workflow comprising three separately trained deep networks was constructed in order to make refined predictions. This deep learning network approach was used to predict SS for a fully independent test dataset of 198 proteins, achieving a Q3 accuracy of 80.7 percent and a Sov accuracy of 74.2 percent.

  5. A network theory approach for a better understanding of overland flow connectivity

    NASA Astrophysics Data System (ADS)

    Masselink, Rens; Heckmann, Tobias; Temme, Arnaud; Anders, Niels; Keesstra, Saskia

    2016-04-01

    Hydrological connectivity describes the physical coupling, or linkages of different elements within a landscape regarding (sub)surface flows. A firm understanding of hydrological connectivity is important for catchment management applications, for e.g. habitat and species protection, and for flood resistance and resilience improvement. Thinking about (geomorphological) systems as networks can lead to new insights, which has been recognised within the scientific community as well, seeing the recent increase in the use of network (graph) theory within the geosciences. Network theory supports the analysis and understanding of complex systems by providing data structures for modelling objects and their linkages, and a versatile toolbox to quantitatively appraise network structure and properties. The objective of this study was to characterise overland flow connectivity dynamics on hillslopes in a humid sub-Mediterranean environment by using a combination of high-resolution digital-terrain models, overland flow sensors and a network approach. Results showed that there are significant differences between overland flow on agricultural areas and semi-natural shrubs areas. Positive correlations between connectivity and precipitation characteristics were found, while negative correlations between connectivity and soil moisture were found, probably due to soil water repellency. The combination of a structural network to determine potential connectivity with dynamic networks to determine the actual connectivity proved a powerful tool in analysing overland flow connectivity.

  6. 3D imaging of soil pore network: two different approaches

    NASA Astrophysics Data System (ADS)

    Matrecano, M.; Di Matteo, B.; Mele, G.; Terribile, F.

    2009-04-01

    system but on less noisy images. SSAT system showed more flexibility in terms of sample size although both techniques allowed investigation on REVs (Representative Elementary Volumes) for most of macroscopic properties describing soil processes. Morover, undoubted advantages of not destructivity and ease sample preparation for the Skysan 1172 are balanced by lower overall costs for the SSAT and its potential of producing 3D representation of soil features different from the simple solid/porous phases. Both approaches allow to use exactly the same image analysis procedures on the reconstructed 3D images although require some specific pre-processing treatments.

  7. Collaboration Levels in Asynchronous Discussion Forums: A Social Network Analysis Approach

    ERIC Educational Resources Information Center

    Luhrs, Cecilia; McAnally-Salas, Lewis

    2016-01-01

    Computer Supported Collaborative Learning literature relates high levels of collaboration to enhanced learning outcomes. However, an agreement on what is considered a high level of collaboration is unclear, especially if a qualitative approach is taken. This study describes how methods of Social Network Analysis were used to design a collaboration…

  8. Networking for Leadership, Inquiry, and Systemic Thinking: A New Approach to Inquiry-Based Learning.

    ERIC Educational Resources Information Center

    Byers, Al; Fitzgerald, Mary Ann

    2002-01-01

    Points out difficulties with a change from traditional teaching methods to a more inquiry-centered approach. Presents theoretical and empirical foundations for the Networking for Leadership, Inquiry, and Systemic Thinking (NLIST) initiative sponsored by the Council of State Science Supervisors (CSSS) and NASA, describes its progress, and outlines…

  9. A Networking Approach to Groundwater Education in West Oakland County, Michigan.

    ERIC Educational Resources Information Center

    Dean, Lillian F.

    1984-01-01

    A public education project in West Oakland County (Michigan) was started to encourage individual citizen responsibility and action related to groundwater protection. A description of the project is provided, showing the effectiveness of using a networking approach for broad public education. (JN)

  10. Multi-level security for computer networking - SAC digital network approach

    NASA Astrophysics Data System (ADS)

    Griess, W.; Poutre, D. L.

    The functional features and architecture of the SACDIN (SAC digital network) are detailed. SACDIN is the new data transmission segment for directing SAC's strategic forces. The system has 135 processor nodes at 32 locations and processes, distributes and stores data of any level of security classification. The sophistication of access nodes is dependent on the location. A reference monitor mediates the multilevel security by implementation of the multi-state machine concept, i.e., the Bell-LaPadula model (1973, 1974), which concludes that a secure state can never lead to an unsecure state. The monitor is controlled by the internal access control mechanism, which resides in PROM. Details of the access process are provided, including message flow on trusted paths appropriate to the security clearance of the user.

  11. Networking of networks: a 1990s approach to information for development.

    PubMed

    1992-06-01

    The ability to access and use information is increasingly becoming a crucial determinant of a country's ability to achieve sustainable socioeconomic development. Countries which are able to manage and utilize data and information have a competitive advantage over other nations. Countries which fail to tap into the growing global knowledge base, develop a complementary local knowledge base, promote the dissemination and use of knowledge, and invest in institutional and technical human capital will, however, simply remain or fall behind the competition. Many developing countries lack appropriate strategy, financial support for information centers and networks, timely adoption and use of new technology, adequate telecommunications infrastructure, and coordination at national and regional levels. Further, telecommunications services are costly, research on user group behavior is inadequate, few technically skilled people are available, and governments fail to recognize the importance of joining international information networks. Policy development, maternal-child health and family planning, and information, education, and communication are 3 of the most significant population issues worldwide. To best address these issues, international development agencies are urged to veer from providing capital and to directly support greater access to information and enhanced knowledge leading to sustainable national development. Thus far the UN has helped create global information systems in certain areas, and regional cooperative information systems are being developed. ESCAP has taken the lead in Asia and the Pacific. Gradually, population libraries and information centers are becoming computerized. Greater effort is recommended to recover costs for services and products. Further, donors and country organizations should stress that information is only useful as far as it is used.

  12. Infectious disease surveillance in animal movement networks: An approach based on the friendship paradox.

    PubMed

    Amaku, Marcos; Grisi-Filho, José Henrique de Hildebrand; Negreiros, Rísia Lopes; Dias, Ricardo Augusto; Ferreira, Fernando; Ferreira Neto, José Soares; Cipullo, Rafael Ishibashi; Marques, Fernando Silveira; Ossada, Raul

    2015-10-01

    The network of animal movements among livestock premises is an important topological structure for the spread of infectious diseases. The central focus of this study was to analyze strategies for selecting premises based on the friendship paradox ("your friends have more friends than you do") - in which premises that neighbor randomly selected premises are sampled for surveillance or control - to determine whether these strategies are viable alternatives for the surveillance and control of diseases in scenarios with insufficient data on animal movement. To test the effectiveness of these strategies, we performed three sets of simulations. In the first set, we examined the risk of spreading an infectious disease using the cattle movement network of the state of Mato Grosso, Brazil. All tested strategies based on the friendship paradox have comparable performance to the hub control strategy (controlling premises that sold more animals) and superior performance to random sampling in terms of both reducing the risk of purchasing infected animals and the number of premises that need to be controlled. In the second and third sets of simulations, we observed that the friendship paradox strategies were more sensitive than the random sampling strategy to detect cases and disease, respectively. The survey of the entire animal movement network to identify animal premises with a key role in trade is not always possible, either because the data are insufficient or because informal trade is significant. If surveying the network is not possible, all approaches based on knowledge of the network become useless. As an alternative, knowing that there is a hidden movement network that follows rules inherent to all networks, such as the friendship paradox, can be used to our advantage. Strategies based on the friendship paradox do not assume knowledge of the animal movement network and therefore may be viable alternatives for the surveillance or control of infectious diseases in the

  13. Comparative analysis of neural network and regression based condition monitoring approaches for wind turbine fault detection

    NASA Astrophysics Data System (ADS)

    Schlechtingen, Meik; Ferreira Santos, Ilmar

    2011-07-01

    This paper presents the research results of a comparison of three different model based approaches for wind turbine fault detection in online SCADA data, by applying developed models to five real measured faults and anomalies. The regression based model as the simplest approach to build a normal behavior model is compared to two artificial neural network based approaches, which are a full signal reconstruction and an autoregressive normal behavior model. Based on a real time series containing two generator bearing damages the capabilities of identifying the incipient fault prior to the actual failure are investigated. The period after the first bearing damage is used to develop the three normal behavior models. The developed or trained models are used to investigate how the second damage manifests in the prediction error. Furthermore the full signal reconstruction and the autoregressive approach are applied to further real time series containing gearbox bearing damages and stator temperature anomalies. The comparison revealed all three models being capable of detecting incipient faults. However, they differ in the effort required for model development and the remaining operational time after first indication of damage. The general nonlinear neural network approaches outperform the regression model. The remaining seasonality in the regression model prediction error makes it difficult to detect abnormality and leads to increased alarm levels and thus a shorter remaining operational period. For the bearing damages and the stator anomalies under investigation the full signal reconstruction neural network gave the best fault visibility and thus led to the highest confidence level.

  14. RESHEN, a best practice approach for secure healthcare networks in Europe.

    PubMed

    Georgoulas, Aggelos; Bourka, Athena; Kaliontzoglou, Alexandros; Polemi, Nineta; Koutsouris, Dimitris

    2003-01-01

    Electronic communication of healthcare related information (in the framework of Regional Healthcare Information Networks), introduces a number of security risks with regard to confidentiality, integrity and availability, which can become quite crucial taking into account its sensitive nature. Public Key Infrastructure (PKI) is acknowledged as an appropriate means for dealing with such risks, as long as all the involved critical factors are first practically assessed. This paper presents a best-practice approach for secure regional healthcare networks in Europe, examining all the identified crucial parameters (technical, organisational, legal/regulatory, medical and business). Our approach is conducted at two levels (the regional and the European), including the integration of PKI-aware security mechanisms (strong authentication, encryption, digital signature, time-stamping) in three regional pilot sites in Greece, Finland and Germany and demonstrating their interconnection in a pan-European architecture. Following the above approach, some major conclusions are excluded, pointing out existing open issues and possible steps forward.

  15. A two-stage approach for a multi-objective component assignment problem for a stochastic-flow network

    NASA Astrophysics Data System (ADS)

    Lin, Yi-Kuei; Yeh, Cheng-Ta

    2013-03-01

    Many real-life systems, such as computer systems, manufacturing systems and logistics systems, are modelled as stochastic-flow networks (SFNs) to evaluate network reliability. Here, network reliability, defined as the probability that the network successfully transmits d units of data/commodity from an origin to a destination, is a performance indicator of the systems. Network reliability maximization is a particular objective, but is costly for many system supervisors. This article solves the multi-objective problem of reliability maximization and cost minimization by finding the optimal component assignment for SFN, in which a set of multi-state components is ready to be assigned to the network. A two-stage approach integrating Non-dominated Sorting Genetic Algorithm II and simple additive weighting are proposed to solve this problem, where network reliability is evaluated in terms of minimal paths and recursive sum of disjoint products. Several practical examples related to computer networks are utilized to demonstrate the proposed approach.

  16. Statistical methods and neural network approaches for classification of data from multiple sources

    NASA Technical Reports Server (NTRS)

    Benediktsson, Jon Atli; Swain, Philip H.

    1990-01-01

    Statistical methods for classification of data from multiple data sources are investigated and compared to neural network models. A problem with using conventional multivariate statistical approaches for classification of data of multiple types is in general that a multivariate distribution cannot be assumed for the classes in the data sources. Another common problem with statistical classification methods is that the data sources are not equally reliable. This means that the data sources need to be weighted according to their reliability but most statistical classification methods do not have a mechanism for this. This research focuses on statistical methods which can overcome these problems: a method of statistical multisource analysis and consensus theory. Reliability measures for weighting the data sources in these methods are suggested and investigated. Secondly, this research focuses on neural network models. The neural networks are distribution free since no prior knowledge of the statistical distribution of the data is needed. This is an obvious advantage over most statistical classification methods. The neural networks also automatically take care of the problem involving how much weight each data source should have. On the other hand, their training process is iterative and can take a very long time. Methods to speed up the training procedure are introduced and investigated. Experimental results of classification using both neural network models and statistical methods are given, and the approaches are compared based on these results.

  17. Channel network identification from high-resolution DTM: a statistical approach

    NASA Astrophysics Data System (ADS)

    Sofia, G.; Tarolli, P.; Cazorzi, F.; Dalla Fontana, G.

    2010-12-01

    A statistical approach to LiDAR derived topographic attributes for the automatic extraction of channel network is presented in this paper. The basis of this approach is to use statistical descriptors to identify channel where terrain geometry denotes significant convergences. Two case study areas of different morphology and degree of organization are used with their 1 m LiDAR Digital Terrain Models (DTMs). Topographic attribute maps (curvature and openness) for different window sizes are derived from the DTMs in order to detect surface convergences. For the choice of the optimum kernel size, a statistical analysis on values distributions of these maps is carried out. For the network extraction, we propose a three-step method based (a) on the normalization and overlapping of openness and minimum curvature in order to highlight the more likely surface convergences, (b) a weighting of the upslope area according to such normalized maps in order to identify drainage flow paths and flow accumulation consistent with terrain geometry, (c) the z-score normalization of the weighted upslope area and the use of z-score values as non-subjective threshold for channel network identification. As a final step for optimal definition and representation of the whole network, a noise-filtering and connection procedure is applied. The advantage of the proposed methodology, and the efficiency and accurate localization of extracted features are demonstrated using LiDAR data of two different areas and comparing both extractions with field surveyed networks.

  18. Behavior-based network management: a unique model-based approach to implementing cyber superiority

    NASA Astrophysics Data System (ADS)

    Seng, Jocelyn M.

    2016-05-01

    Behavior-Based Network Management (BBNM) is a technological and strategic approach to mastering the identification and assessment of network behavior, whether human-driven or machine-generated. Recognizing that all five U.S. Air Force (USAF) mission areas rely on the cyber domain to support, enhance and execute their tasks, BBNM is designed to elevate awareness and improve the ability to better understand the degree of reliance placed upon a digital capability and the operational risk.2 Thus, the objective of BBNM is to provide a holistic view of the digital battle space to better assess the effects of security, monitoring, provisioning, utilization management, allocation to support mission sustainment and change control. Leveraging advances in conceptual modeling made possible by a novel advancement in software design and implementation known as Vector Relational Data Modeling (VRDM™), the BBNM approach entails creating a network simulation in which meaning can be inferred and used to manage network behavior according to policy, such as quickly detecting and countering malicious behavior. Initial research configurations have yielded executable BBNM models as combinations of conceptualized behavior within a network management simulation that includes only concepts of threats and definitions of "good" behavior. A proof of concept assessment called "Lab Rat," was designed to demonstrate the simplicity of network modeling and the ability to perform adaptation. The model was tested on real world threat data and demonstrated adaptive and inferential learning behavior. Preliminary results indicate this is a viable approach towards achieving cyber superiority in today's volatile, uncertain, complex and ambiguous (VUCA) environment.

  19. A Multilayer Network Approach for Guiding Drug Repositioning in Neglected Diseases

    PubMed Central

    Chernomoretz, Ariel; Agüero, Fernán

    2016-01-01

    Drug development for neglected diseases has been historically hampered due to lack of market incentives. The advent of public domain resources containing chemical information from high throughput screenings is changing the landscape of drug discovery for these diseases. In this work we took advantage of data from extensively studied organisms like human, mouse, E. coli and yeast, among others, to develop a novel integrative network model to prioritize and identify candidate drug targets in neglected pathogen proteomes, and bioactive drug-like molecules. We modeled genomic (proteins) and chemical (bioactive compounds) data as a multilayer weighted network graph that takes advantage of bioactivity data across 221 species, chemical similarities between 1.7 105 compounds and several functional relations among 1.67 105 proteins. These relations comprised orthology, sharing of protein domains, and shared participation in defined biochemical pathways. We showcase the application of this network graph to the problem of prioritization of new candidate targets, based on the information available in the graph for known compound-target associations. We validated this strategy by performing a cross validation procedure for known mouse and Trypanosoma cruzi targets and showed that our approach outperforms classic alignment-based approaches. Moreover, our model provides additional flexibility as two different network definitions could be considered, finding in both cases qualitatively different but sensible candidate targets. We also showcase the application of the network to suggest targets for orphan compounds that are active against Plasmodium falciparum in high-throughput screens. In this case our approach provided a reduced prioritization list of target proteins for the query molecules and showed the ability to propose new testable hypotheses for each compound. Moreover, we found that some predictions highlighted by our network model were supported by independent

  20. Fostering Earth Observation Regional Networks - Integrative and iterative approaches to capacity building

    NASA Astrophysics Data System (ADS)

    Habtezion, S.

    2015-12-01

    Fostering Earth Observation Regional Networks - Integrative and iterative approaches to capacity building Fostering Earth Observation Regional Networks - Integrative and iterative approaches to capacity building Senay Habtezion (shabtezion@start.org) / Hassan Virji (hvirji@start.org)Global Change SySTem for Analysis, Training and Research (START) (www.start.org) 2000 Florida Avenue NW, Suite 200 Washington, DC 20009 USA As part of the Global Observation of Forest and Land Cover Dynamics (GOFC-GOLD) project partnership effort to promote use of earth observations in advancing scientific knowledge, START works to bridge capacity needs related to earth observations (EOs) and their applications in the developing world. GOFC-GOLD regional networks, fostered through the support of regional and thematic workshops, have been successful in (1) enabling participation of scientists for developing countries and from the US to collaborate on key GOFC-GOLD and Land Cover and Land Use Change (LCLUC) issues, including NASA Global Data Set validation and (2) training young developing country scientists to gain key skills in EOs data management and analysis. Members of the regional networks are also engaged and reengaged in other EOs programs (e.g. visiting scientists program; data initiative fellowship programs at the USGS EROS Center and Boston University), which has helped strengthen these networks. The presentation draws from these experiences in advocating for integrative and iterative approaches to capacity building through the lens of the GOFC-GOLD partnership effort. Specifically, this presentation describes the role of the GODC-GOLD partnership in nurturing organic networks of scientists and EOs practitioners in Asia, Africa, Eastern Europe and Latin America.

  1. A Multilayer Network Approach for Guiding Drug Repositioning in Neglected Diseases.

    PubMed

    Berenstein, Ariel José; Magariños, María Paula; Chernomoretz, Ariel; Agüero, Fernán

    2016-01-01

    Drug development for neglected diseases has been historically hampered due to lack of market incentives. The advent of public domain resources containing chemical information from high throughput screenings is changing the landscape of drug discovery for these diseases. In this work we took advantage of data from extensively studied organisms like human, mouse, E. coli and yeast, among others, to develop a novel integrative network model to prioritize and identify candidate drug targets in neglected pathogen proteomes, and bioactive drug-like molecules. We modeled genomic (proteins) and chemical (bioactive compounds) data as a multilayer weighted network graph that takes advantage of bioactivity data across 221 species, chemical similarities between 1.7 105 compounds and several functional relations among 1.67 105 proteins. These relations comprised orthology, sharing of protein domains, and shared participation in defined biochemical pathways. We showcase the application of this network graph to the problem of prioritization of new candidate targets, based on the information available in the graph for known compound-target associations. We validated this strategy by performing a cross validation procedure for known mouse and Trypanosoma cruzi targets and showed that our approach outperforms classic alignment-based approaches. Moreover, our model provides additional flexibility as two different network definitions could be considered, finding in both cases qualitatively different but sensible candidate targets. We also showcase the application of the network to suggest targets for orphan compounds that are active against Plasmodium falciparum in high-throughput screens. In this case our approach provided a reduced prioritization list of target proteins for the query molecules and showed the ability to propose new testable hypotheses for each compound. Moreover, we found that some predictions highlighted by our network model were supported by independent

  2. Complexity and Modularity of Intracellular Networks - A Systematic Approach for Modeling and Simulation

    PubMed Central

    Blinov, Michael L.; Ruebenacker, Oliver; Moraru, Ion I.

    2009-01-01

    Assembly of quantitative models of large complex networks brings about several challenges. One of them is combinatorial complexity, where relatively few signaling molecules can combine to form thousands or millions of distinct chemical species. A receptor that has several separate phosphorylation sites can exist in hundreds of different states, many of which must be accounted for individually when simulating the time course of signaling. When assembly of protein complexes is being included, the number of distinct molecular species can easily increase by a few orders of magnitude. Validation, visualization, and understanding the network can become intractable. Another challenge appears when the modeler needs to recast or grow a model. Keeping track of changes and adding new elements present a significant difficulty. We describe an approach to solve these challenges within the Virtual Cell (VCell). Using (i) automatic extraction from pathway databases of model components, and (ii) rules of interactions that serve as reaction network generators, we provide a way for semi-automatic generation of quantitative mathematical models that also facilitates the reuse of model elements. In this approach, kinetic models of large, complex networks can be assembled from separately constructed modules, either directly or via rules. To implement this approach, we have combined the strength of several related technologies: the BioPAX ontology, the BioNetGen rule-based description of molecular interactions, and the VCell modeling and simulation framework. PMID:19045831

  3. A New Approach in Advance Network Reservation and Provisioning for High-Performance Scientific Data Transfers

    SciTech Connect

    Balman, Mehmet; Chaniotakis, Evangelos; Shoshani, Arie; Sim, Alex

    2010-01-28

    Scientific applications already generate many terabytes and even petabytes of data from supercomputer runs and large-scale experiments. The need for transferring data chunks of ever-increasing sizes through the network shows no sign of abating. Hence, we need high-bandwidth high speed networks such as ESnet (Energy Sciences Network). Network reservation systems, i.e. ESnet's OSCARS (On-demand Secure Circuits and Advance Reservation System) establish guaranteed bandwidth of secure virtual circuits at a certain time, for a certain bandwidth and length of time. OSCARS checks network availability and capacity for the specified period of time, and allocates requested bandwidth for that user if it is available. If the requested reservation cannot be granted, no further suggestion is returned back to the user. Further, there is no possibility from the users view-point to make an optimal choice. We report a new algorithm, where the user specifies the total volume that needs to be transferred, a maximum bandwidth that he/she can use, and a desired time period within which the transfer should be done. The algorithm can find alternate allocation possibilities, including earliest time for completion, or shortest transfer duration - leaving the choice to the user. We present a novel approach for path finding in time-dependent networks, and a new polynomial algorithm to find possible reservation options according to given constraints. We have implemented our algorithm for testing and incorporation into a future version of ESnet?s OSCARS. Our approach provides a basis for provisioning end-to-end high performance data transfers over storage and network resources.

  4. Propagation of New Innovations: An Approach to Classify Human Behavior and Movement from Available Social Network Data

    NASA Technical Reports Server (NTRS)

    Mahmud, Faisal; Samiul, Hasan

    2010-01-01

    It is interesting to observe new innovations, products, or ideas propagating into the society. One important factor of this propagation is the role of individual's social network; while another factor is individual's activities. In this paper, an approach will be made to analyze the propagation of different ideas in a popular social network. Individuals' responses to different activities in the network will be analyzed. The properties of network will also be investigated for successful propagation of innovations.

  5. A geovisual analytic approach to understanding geo-social relationships in the international trade network.

    PubMed

    Luo, Wei; Yin, Peifeng; Di, Qian; Hardisty, Frank; MacEachren, Alan M

    2014-01-01

    The world has become a complex set of geo-social systems interconnected by networks, including transportation networks, telecommunications, and the internet. Understanding the interactions between spatial and social relationships within such geo-social systems is a challenge. This research aims to address this challenge through the framework of geovisual analytics. We present the GeoSocialApp which implements traditional network analysis methods in the context of explicitly spatial and social representations. We then apply it to an exploration of international trade networks in terms of the complex interactions between spatial and social relationships. This exploration using the GeoSocialApp helps us develop a two-part hypothesis: international trade network clusters with structural equivalence are strongly 'balkanized' (fragmented) according to the geography of trading partners, and the geographical distance weighted by population within each network cluster has a positive relationship with the development level of countries. In addition to demonstrating the potential of visual analytics to provide insight concerning complex geo-social relationships at a global scale, the research also addresses the challenge of validating insights derived through interactive geovisual analytics. We develop two indicators to quantify the observed patterns, and then use a Monte-Carlo approach to support the hypothesis developed above.

  6. A Holistic Approach to ZigBee Performance Enhancement for Home Automation Networks

    PubMed Central

    Betzler, August; Gomez, Carles; Demirkol, Ilker; Paradells, Josep

    2014-01-01

    Wireless home automation networks are gaining importance for smart homes. In this ambit, ZigBee networks play an important role. The ZigBee specification defines a default set of protocol stack parameters and mechanisms that is further refined by the ZigBee Home Automation application profile. In a holistic approach, we analyze how the network performance is affected with the tuning of parameters and mechanisms across multiple layers of the ZigBee protocol stack and investigate possible performance gains by implementing and testing alternative settings. The evaluations are carried out in a testbed of 57 TelosB motes. The results show that considerable performance improvements can be achieved by using alternative protocol stack configurations. From these results, we derive two improved protocol stack configurations for ZigBee wireless home automation networks that are validated in various network scenarios. In our experiments, these improved configurations yield a relative packet delivery ratio increase of up to 33.6%, a delay decrease of up to 66.6% and an improvement of the energy efficiency for battery powered devices of up to 48.7%, obtainable without incurring any overhead to the network. PMID:25196004

  7. A holistic approach to ZigBee performance enhancement for home automation networks.

    PubMed

    Betzler, August; Gomez, Carles; Demirkol, Ilker; Paradells, Josep

    2014-08-14

    Wireless home automation networks are gaining importance for smart homes. In this ambit, ZigBee networks play an important role. The ZigBee specification defines a default set of protocol stack parameters and mechanisms that is further refined by the ZigBee Home Automation application profile. In a holistic approach, we analyze how the network performance is affected with the tuning of parameters and mechanisms across multiple layers of the ZigBee protocol stack and investigate possible performance gains by implementing and testing alternative settings. The evaluations are carried out in a testbed of 57 TelosB motes. The results show that considerable performance improvements can be achieved by using alternative protocol stack configurations. From these results, we derive two improved protocol stack configurations for ZigBee wireless home automation networks that are validated in various network scenarios. In our experiments, these improved configurations yield a relative packet delivery ratio increase of up to 33.6%, a delay decrease of up to 66.6% and an improvement of the energy efficiency for battery powered devices of up to 48.7%, obtainable without incurring any overhead to the network.

  8. A Lyapunov-Razumikhin approach for stability analysis of logistics networks with time-delays

    NASA Astrophysics Data System (ADS)

    Dashkovskiy, Sergey; Karimi, Hamid Reza; Kosmykov, Michael

    2012-05-01

    Logistics network represents a complex system where different elements that are logistic locations interact with each other. This interaction contains delays caused by time needed for delivery of the material. Complexity of the system, time-delays and perturbations in a customer demand may cause unstable behaviour of the network. This leads to the loss of the customers and high inventory costs. Thus the investigation of the network on stability is desired during its design. In this article we consider local input-to-state stability of such logistics networks. Their behaviour is described by a functional differential equation with a constant time-delay. We are looking for verifiable conditions that guarantee stability of the network under consideration. Lyapunov-Razumikhin functions and the local small gain condition are utilised to obtain such conditions. Our stability conditions for the logistics network are based on the information about the interconnection properties between logistic locations and their production rates. Finally, numerical results are provided to demonstrate the proposed approach.

  9. A neural network approach for monitoring of volcanic SO2 and cloud height using hyperspectral measurements

    NASA Astrophysics Data System (ADS)

    Piscini, Alessandro; Carboni, Elisa; Del Frate, Fabio; Grainger, Roy Gordon

    2014-10-01

    In this study two neural networks were implemented in order to emulate a retrieval model and to estimate the sulphur dioxide (SO2) columnar content and cloud height from volcanic eruption. ANNs were trained using all Infrared Atmospheric Sounding Interferometer (IASI) channels in Thermal Infrared (TIR) as inputs, and the corresponding values of SO2 content and height of volcanic cloud obtained using the Oxford SO2 retrievals as target outputs. The retrieval is demonstrated for the eruption of the Eyjafjallajökull volcano (Iceland) occurred in 2010 and to three IASI images of the Grímsvötn volcanic eruption that occurred in May 2011, in order to evaluate the networks for an unknown eruption. The results of validation, both for Eyjafjallajökull independent data-sets, provided root mean square error (RMSE) values between neural network outputs and targets lower than 20 DU for SO2 total column and 200 mb for cloud height, therefore demonstrating the feasibility to estimate SO2 values using a neural network approach, and its importance in near real time monitoring activities, owing to its fast application. Concerning the validation carried out with neural networks on images from the Grímsvötn eruption, the RMSE of the outputs remained lower than the Standard Deviation (STD) of targets, and the neural network underestimated retrieval only where target outputs showed different statistics than those used during the training phase.

  10. A new neural network approach to the target tracking problem with smart structure

    NASA Astrophysics Data System (ADS)

    Çaylar, Selçuk; Leblebicioǧlu, Kemal; Dural, Gülbin

    2006-10-01

    A modified neural network-based algorithm (modified neural multiple-source tracking algorithm (MN-MUST)) is proposed for real-time multiple-source tracking problem. The proposed approach reduced the input size of the neural network without any degradation of the accuracy of the system for uncorrelated sources. In addition, a spatial filtering stage that considerably improves the performance of the system is proposed to be inserted. It is observed that the MN-MUST algorithm provides an accurate and efficient solution to the target-tracking problem in real time.

  11. Space Network Control (SNC) Conference on Resource Allocation Concepts and Approaches. Overview

    NASA Technical Reports Server (NTRS)

    1991-01-01

    In session 1 of the conference, Concepts for space network resource allocation was the main topic. In session 2, Space Network Control and user payload operations and control center human-computer interface, was the topic of discussion. The topic of session 3 was Resource allocation tools, technology, and algorithms. Some of the stated goals for the conference are as follows: to survey existing resource allocation concepts and approaches; to identify solutions applicable to the SN problem; to identify fruitful avenues of study in support of SNC development; and to capture knowledge in proceedings and make available to bidders on the SNC concept definition procurement.

  12. Approach jamming effectiveness evaluation for surface-type infrared decoy in network centric warship formation

    NASA Astrophysics Data System (ADS)

    Lv, Mingshan

    2015-10-01

    The passive and photoelectrical jamming to anti-ship missile in the condition of network centric warship formation is an important research issue of fleet EW operation. An approach jamming method of shipborne surface-type infrared decoy countering the infrared image guided anti-ship missile is put forward. By analyzing the countering process the jamming effectiveness evaluation model is constructed. By simulation the method is proved t reasonable and effective. This method breaks through the traditional restrict that the passive and photoelectricity jamming measure can only be used in the end self-defence and provides a new method for network centric worship formation to support each other.

  13. An effective access control approach to support mobility in IPv6 networks

    NASA Astrophysics Data System (ADS)

    Peng, Xue-hai; Lin, Chuang

    2005-11-01

    Access control is an important method to improve network security and prevent protected resources from being used by some nodes without authority. Moreover, mobility is an important trend of internet. In this paper, based on the architecture of hierarchical mobile IPv6, we proposed an effective access control approach to support mobility in IPv6 networks, which can ensure the operation of access control when a mobile node roams in these domains with different polices, with decreased delay of access negotiation and cost of delivering messages.

  14. A cloud-based data network approach for translational cancer research.

    PubMed

    Xing, Wei; Tsoumakos, Dimitrios; Ghanem, Moustafa

    2015-01-01

    We develop a new model and associated technology for constructing and managing self-organizing data to support translational cancer research studies. We employ a semantic content network approach to address the challenges of managing cancer research data. Such data is heterogeneous, large, decentralized, growing and continually being updated. Moreover, the data originates from different information sources that may be partially overlapping, creating redundancies as well as contradictions and inconsistencies. Building on the advantages of elasticity of cloud computing, we deploy the cancer data networks on top of the CELAR Cloud platform to enable more effective processing and analysis of Big cancer data.

  15. First principles and effective theory approaches to dynamics of complex networks

    NASA Astrophysics Data System (ADS)

    Dehmamy, Nima

    This dissertation concerns modeling two aspects of dynamics of complex networks: (1) response dynamics and (2) growth and formation. A particularly challenging class of networks are ones in which both nodes and links are evolving over time -- the most prominent example is a financial network. In the first part of the dissertation we present a model for the response dynamics in networks near a metastable point. We start with a Landau-Ginzburg approach and show that the most general lowest order Lagrangians for dynamical weighted networks can be used to derive conditions for stability under external shocks. Using a closely related model, which is easier to solve numerically, we propose a powerful and intuitive set of equations for response dynamics of financial networks. We find the stability conditions of the model and find two phases: "calm" phase , in which changes are sub-exponential and where the system moves to a new, close-by equilibrium; "frantic" phase, where changes are exponential, with negative blows resulting in crashes and positive ones leading to formation of "bubbles". We empirically verify these claims by analyzing data from Eurozone crisis of 2009-2012 and stock markets. We show that the model correctly identifies the time-line of the Eurozone crisis, and in the stock market data it correctly reproduces the auto-correlations and phases observed in the data. The second half of the dissertation addresses the following question: Do networks that form due to local interactions (local in real space, or in an abstract parameter space) have characteristics different from networks formed of random or non-local interactions? Using interacting fields obeying Fokker-Planck equations we show that many network characteristics such as degree distribution, degree-degree correlation and clustering can either be derived analytically or there are analytical bounds on their behaviour. In particular, we derive recursive equations for all powers of the ensemble average

  16. a Hybrid Approach of Neural Network with Particle Swarm Optimization for Tobacco Pests Prediction

    NASA Astrophysics Data System (ADS)

    Lv, Jiake; Wang, Xuan; Xie, Deti; Wei, Chaofu

    Forecasting pests emergence levels plays a significant role in regional crop planting and management. The accuracy, which is derived from the accuracy of the forecasting approach used, will determine the economics of the operation of the pests prediction. Conventional methods including time series, regression analysis or ARMA model entail exogenous input together with a number of assumptions. The use of neural networks has been shown to be a cost-effective technique. But their training, usually with back-propagation algorithm or other gradient algorithms, is featured with some drawbacks such as very slow convergence and easy entrapment in a local minimum. This paper presents a hybrid approach of neural network with particle swarm optimization for developing the accuracy of predictions. The approach is applied to forecast Alternaria alternate Keissl emergence level of the WuLong Country, one of the most important tobacco planting areas in Chongqing. Traditional ARMA model and BP neural network are investigated as comparison basis. The experimental results show that the proposed approach can achieve better prediction performance.

  17. Artificial neuron-glia networks learning approach based on cooperative coevolution.

    PubMed

    Mesejo, Pablo; Ibáñez, Oscar; Fernández-Blanco, Enrique; Cedrón, Francisco; Pazos, Alejandro; Porto-Pazos, Ana B

    2015-06-01

    Artificial Neuron-Glia Networks (ANGNs) are a novel bio-inspired machine learning approach. They extend classical Artificial Neural Networks (ANNs) by incorporating recent findings and suppositions about the way information is processed by neural and astrocytic networks in the most evolved living organisms. Although ANGNs are not a consolidated method, their performance against the traditional approach, i.e. without artificial astrocytes, was already demonstrated on classification problems. However, the corresponding learning algorithms developed so far strongly depends on a set of glial parameters which are manually tuned for each specific problem. As a consequence, previous experimental tests have to be done in order to determine an adequate set of values, making such manual parameter configuration time-consuming, error-prone, biased and problem dependent. Thus, in this paper, we propose a novel learning approach for ANGNs that fully automates the learning process, and gives the possibility of testing any kind of reasonable parameter configuration for each specific problem. This new learning algorithm, based on coevolutionary genetic algorithms, is able to properly learn all the ANGNs parameters. Its performance is tested on five classification problems achieving significantly better results than ANGN and competitive results with ANN approaches.

  18. Implementing a Trauma-Informed Approach in Pediatric Health Care Networks.

    PubMed

    Marsac, Meghan L; Kassam-Adams, Nancy; Hildenbrand, Aimee K; Nicholls, Elizabeth; Winston, Flaura K; Leff, Stephen S; Fein, Joel

    2016-01-01

    Pediatric health care networks serve millions of children each year. Pediatric illness and injury are among the most common potentially emotionally traumatic experiences for children and their families. In addition, millions of children who present for medical care (including well visits) have been exposed to prior traumatic events, such as violence or natural disasters. Given the daily challenges of working in pediatric health care networks, medical professionals and support staff can experience trauma symptoms related to their work. The application of a trauma-informed approach to medical care has the potential to mitigate these negative consequences. Trauma-informed care minimizes the potential for medical care to become traumatic or trigger trauma reactions, addresses distress, provides emotional support for the entire family, encourages positive coping, and provides anticipatory guidance regarding the recovery process. When used in conjunction with family-centered practices, trauma-informed approaches enhance the quality of care for patients and their families and the well-being of medical professionals and support staff. Barriers to routine integration of trauma-informed approaches into pediatric medicine include a lack of available training and unclear best-practice guidelines. This article highlights the importance of implementing a trauma-informed approach and offers a framework for training pediatric health care networks in trauma-informed care practices.

  19. A multilevel approach to network meta-analysis within a frequentist framework.

    PubMed

    Greco, Teresa; Edefonti, Valeria; Biondi-Zoccai, Giuseppe; Decarli, Adriano; Gasparini, Mauro; Zangrillo, Alberto; Landoni, Giovanni

    2015-05-01

    Meta-analysis is a powerful tool to summarize knowledge. Pairwise or network meta-analysis may be carried out with multivariate models that account for the dependence between treatment estimates and quantify the correlation across studies. From a different perspective, meta-analysis may be viewed as a special case of multilevel analysis having a hierarchical data structure. Hence, we introduce an alternative frequentist approach, called multilevel network meta-analysis, which also allows to account for publication bias and the presence of inconsistency. We propose our approach for a three-level data structure set-up: arms within studies at the first level, studies within study designs at the second level and design configuration at the third level. This strategy differs from the traditional frequentist modeling because it works directly on an arm-based data structure. An advantage of using multilevel analysis is its flexibility, since it naturally allows to add further levels to the model and to accommodate for multiple outcome variables. Moreover, multilevel modeling may be carried out with widely available statistical programs. Finally, we compare the results from our approach with those from a Bayesian network meta-analysis on a binary endpoint which examines the effect on mortality of some anesthetics at the longest follow-up available. In addition, we compare results from the Bayesian and multilevel network meta-analysis approaches on a publicly available "Thrombolytic drugs" database. We also provide the reader with a blueprint of SAS codes for fitting the proposed models, although our approach does not rely on any specific software.

  20. How Structure Shapes Dynamics: Knowledge Development in Wikipedia - A Network Multilevel Modeling Approach

    PubMed Central

    Halatchliyski, Iassen; Cress, Ulrike

    2014-01-01

    Using a longitudinal network analysis approach, we investigate the structural development of the knowledge base of Wikipedia in order to explain the appearance of new knowledge. The data consists of the articles in two adjacent knowledge domains: psychology and education. We analyze the development of networks of knowledge consisting of interlinked articles at seven snapshots from 2006 to 2012 with an interval of one year between them. Longitudinal data on the topological position of each article in the networks is used to model the appearance of new knowledge over time. Thus, the structural dimension of knowledge is related to its dynamics. Using multilevel modeling as well as eigenvector and betweenness measures, we explain the significance of pivotal articles that are either central within one of the knowledge domains or boundary-crossing between the two domains at a given point in time for the future development of new knowledge in the knowledge base. PMID:25365319

  1. Extending an operational meteorological monitoring network through machine learning and classical geo-statistical approaches

    NASA Astrophysics Data System (ADS)

    Appelhans, Tim; Mwangomo, Ephraim; Otte, Insa; Detsch, Florian; Nauss, Thomas; Hemp, Andreas; Ndyamkama, Jimmy

    2015-04-01

    This study introduces the set-up and characteristics of a meteorological station network on the southern slopes of Mt. Kilimanjaro, Tanzania. The set-up follows a hierarchical approach covering an elevational as well as a land-use disturbance gradient. The network consists of 52 basic stations measuring ambient air temperature and above ground air humidity and 11 precipitation measurement sites. We provide in depth descriptions of various machine learning and classical geo-statistical methods used to fill observation gaps and extend the spatial coverage of the network to a total of 60 research sites. Performance statistics for these methods indicate that the presented data sets provide reliable measurements of the meteorological reality at Mt. Kilimanjaro. These data provide an excellent basis for ecological studies and are also of great value for regional atmospheric numerical modelling studies for which such comprehensive in-situ validation observations are rare, especially in tropical regions of complex terrain.

  2. A new estimator of heat periods for decadal climate predictions - a complex network approach

    NASA Astrophysics Data System (ADS)

    Weimer, Michael; Mieruch, Sebastian; Schädler, Gerd; Kottmeier, Christoph

    2016-08-01

    Regional decadal predictions have emerged in the past few years as a research field with high application potential, especially for extremes like heat and drought periods. However, up to now the prediction skill of decadal hindcasts, as evaluated with standard methods, is moderate and for extreme values even rarely investigated. In this study, we use hindcast data from a regional climate model (CCLM) for eight regions in Europe and quantify the skill of the model alternatively by constructing time-evolving climate networks and use the network correlation threshold (link strength) as a predictor for heat periods. We show that the skill of the network measure to estimate the low-frequency dynamics of heat periods is superior for decadal predictions with respect to the typical approach of using a fixed temperature threshold for estimating the number of heat periods in Europe.

  3. Optimal design of sewer networks using cellular automata-based hybrid methods: Discrete and continuous approaches

    NASA Astrophysics Data System (ADS)

    Afshar, M. H.; Rohani, M.

    2012-01-01

    In this article, cellular automata based hybrid methods are proposed for the optimal design of sewer networks and their performance is compared with some of the common heuristic search methods. The problem of optimal design of sewer networks is first decomposed into two sub-optimization problems which are solved iteratively in a two stage manner. In the first stage, the pipe diameters of the network are assumed fixed and the nodal cover depths of the network are determined by solving a nonlinear sub-optimization problem. A cellular automata (CA) method is used for the solution of the optimization problem with the network nodes considered as the cells and their cover depths as the cell states. In the second stage, the nodal cover depths calculated from the first stage are fixed and the pipe diameters are calculated by solving a second nonlinear sub-optimization problem. Once again a CA method is used to solve the optimization problem of the second stage with the pipes considered as the CA cells and their corresponding diameters as the cell states. Two different updating rules are derived and used for the CA of the second stage depending on the treatment of the pipe diameters. In the continuous approach, the pipe diameters are considered as continuous variables and the corresponding updating rule is derived mathematically from the original objective function of the problem. In the discrete approach, however, an adhoc updating rule is derived and used taking into account the discrete nature of the pipe diameters. The proposed methods are used to optimally solve two sewer network problems and the results are presented and compared with those obtained by other methods. The results show that the proposed CA based hybrid methods are more efficient and effective than the most powerful search methods considered in this work.

  4. Drug Target Prediction and Repositioning Using an Integrated Network-Based Approach

    PubMed Central

    Emig, Dorothea; Ivliev, Alexander; Pustovalova, Olga; Lancashire, Lee; Bureeva, Svetlana; Nikolsky, Yuri; Bessarabova, Marina

    2013-01-01

    The discovery of novel drug targets is a significant challenge in drug development. Although the human genome comprises approximately 30,000 genes, proteins encoded by fewer than 400 are used as drug targets in the treatment of diseases. Therefore, novel drug targets are extremely valuable as the source for first in class drugs. On the other hand, many of the currently known drug targets are functionally pleiotropic and involved in multiple pathologies. Several of them are exploited for treating multiple diseases, which highlights the need for methods to reliably reposition drug targets to new indications. Network-based methods have been successfully applied to prioritize novel disease-associated genes. In recent years, several such algorithms have been developed, some focusing on local network properties only, and others taking the complete network topology into account. Common to all approaches is the understanding that novel disease-associated candidates are in close overall proximity to known disease genes. However, the relevance of these methods to the prediction of novel drug targets has not yet been assessed. Here, we present a network-based approach for the prediction of drug targets for a given disease. The method allows both repositioning drug targets known for other diseases to the given disease and the prediction of unexploited drug targets which are not used for treatment of any disease. Our approach takes as input a disease gene expression signature and a high-quality interaction network and outputs a prioritized list of drug targets. We demonstrate the high performance of our method and highlight the usefulness of the predictions in three case studies. We present novel drug targets for scleroderma and different types of cancer with their underlying biological processes. Furthermore, we demonstrate the ability of our method to identify non-suspected repositioning candidates using diabetes type 1 as an example. PMID:23593264

  5. A Bayesian network approach to the database search problem in criminal proceedings

    PubMed Central

    2012-01-01

    Background The ‘database search problem’, that is, the strengthening of a case - in terms of probative value - against an individual who is found as a result of a database search, has been approached during the last two decades with substantial mathematical analyses, accompanied by lively debate and centrally opposing conclusions. This represents a challenging obstacle in teaching but also hinders a balanced and coherent discussion of the topic within the wider scientific and legal community. This paper revisits and tracks the associated mathematical analyses in terms of Bayesian networks. Their derivation and discussion for capturing probabilistic arguments that explain the database search problem are outlined in detail. The resulting Bayesian networks offer a distinct view on the main debated issues, along with further clarity. Methods As a general framework for representing and analyzing formal arguments in probabilistic reasoning about uncertain target propositions (that is, whether or not a given individual is the source of a crime stain), this paper relies on graphical probability models, in particular, Bayesian networks. This graphical probability modeling approach is used to capture, within a single model, a series of key variables, such as the number of individuals in a database, the size of the population of potential crime stain sources, and the rarity of the corresponding analytical characteristics in a relevant population. Results This paper demonstrates the feasibility of deriving Bayesian network structures for analyzing, representing, and tracking the database search problem. The output of the proposed models can be shown to agree with existing but exclusively formulaic approaches. Conclusions The proposed Bayesian networks allow one to capture and analyze the currently most well-supported but reputedly counter-intuitive and difficult solution to the database search problem in a way that goes beyond the traditional, purely formulaic expressions

  6. Two-edge disjoint survivable network design problem with relays: a hybrid genetic algorithm and Lagrangian heuristic approach

    NASA Astrophysics Data System (ADS)

    Konak, Abdullah

    2014-01-01

    This article presents a network design problem with relays considering the two-edge network connectivity. The problem arises in telecommunications and logistic networks where a constraint is imposed on the distance that a commodity can travel on a route without being processed by a relay, and the survivability of the network is critical in case of a component failure. The network design problem involves selecting two-edge disjoint paths between source and destination node pairs and determining the location of relays to minimize the network design cost. The formulated problem is solved by a hybrid approach of a genetic algorithm (GA) and a Lagrangian heuristic such that the GA searches for two-edge disjoint paths for each commodity, and the Lagrangian heuristic is used to determine relays on these paths. The performance of the proposed hybrid approach is compared to the previous approaches from the literature, with promising results.

  7. A New Artificial Neural Network Approach in Solving Inverse Kinematics of Robotic Arm (Denso VP6242).

    PubMed

    Almusawi, Ahmed R J; Dülger, L Canan; Kapucu, Sadettin

    2016-01-01

    This paper presents a novel inverse kinematics solution for robotic arm based on artificial neural network (ANN) architecture. The motion of robotic arm is controlled by the kinematics of ANN. A new artificial neural network approach for inverse kinematics is proposed. The novelty of the proposed ANN is the inclusion of the feedback of current joint angles configuration of robotic arm as well as the desired position and orientation in the input pattern of neural network, while the traditional ANN has only the desired position and orientation of the end effector in the input pattern of neural network. In this paper, a six DOF Denso robotic arm with a gripper is controlled by ANN. The comprehensive experimental results proved the applicability and the efficiency of the proposed approach in robotic motion control. The inclusion of current configuration of joint angles in ANN significantly increased the accuracy of ANN estimation of the joint angles output. The new controller design has advantages over the existing techniques for minimizing the position error in unconventional tasks and increasing the accuracy of ANN in estimation of robot's joint angles. PMID:27610129

  8. A New Artificial Neural Network Approach in Solving Inverse Kinematics of Robotic Arm (Denso VP6242)

    PubMed Central

    Dülger, L. Canan; Kapucu, Sadettin

    2016-01-01

    This paper presents a novel inverse kinematics solution for robotic arm based on artificial neural network (ANN) architecture. The motion of robotic arm is controlled by the kinematics of ANN. A new artificial neural network approach for inverse kinematics is proposed. The novelty of the proposed ANN is the inclusion of the feedback of current joint angles configuration of robotic arm as well as the desired position and orientation in the input pattern of neural network, while the traditional ANN has only the desired position and orientation of the end effector in the input pattern of neural network. In this paper, a six DOF Denso robotic arm with a gripper is controlled by ANN. The comprehensive experimental results proved the applicability and the efficiency of the proposed approach in robotic motion control. The inclusion of current configuration of joint angles in ANN significantly increased the accuracy of ANN estimation of the joint angles output. The new controller design has advantages over the existing techniques for minimizing the position error in unconventional tasks and increasing the accuracy of ANN in estimation of robot's joint angles.

  9. A New Artificial Neural Network Approach in Solving Inverse Kinematics of Robotic Arm (Denso VP6242)

    PubMed Central

    Dülger, L. Canan; Kapucu, Sadettin

    2016-01-01

    This paper presents a novel inverse kinematics solution for robotic arm based on artificial neural network (ANN) architecture. The motion of robotic arm is controlled by the kinematics of ANN. A new artificial neural network approach for inverse kinematics is proposed. The novelty of the proposed ANN is the inclusion of the feedback of current joint angles configuration of robotic arm as well as the desired position and orientation in the input pattern of neural network, while the traditional ANN has only the desired position and orientation of the end effector in the input pattern of neural network. In this paper, a six DOF Denso robotic arm with a gripper is controlled by ANN. The comprehensive experimental results proved the applicability and the efficiency of the proposed approach in robotic motion control. The inclusion of current configuration of joint angles in ANN significantly increased the accuracy of ANN estimation of the joint angles output. The new controller design has advantages over the existing techniques for minimizing the position error in unconventional tasks and increasing the accuracy of ANN in estimation of robot's joint angles. PMID:27610129

  10. Algorithmic approaches for computing elementary modes in large biochemical reaction networks.

    PubMed

    Klamt, S; Gagneur, J; von Kamp, A

    2005-12-01

    The concept of elementary (flux) modes provides a rigorous description of pathways in metabolic networks and proved to be valuable in a number of applications. However, the computation of elementary modes is a hard computational task that gave rise to several variants of algorithms during the last years. This work brings substantial progresses to this issue. The authors start with a brief review of results obtained from previous work regarding (a) a unified framework for elementary-mode computation, (b) network compression and redundancy removal and (c) the binary approach by which elementary modes are determined as binary patterns reducing the memory demand drastically without loss of speed. Then the authors will address herein further issues. First, a new way to perform the elementarity tests required during the computation of elementary modes which empirically improves significantly the computation time in large networks is proposed. Second, a method to compute only those elementary modes where certain reactions are involved is derived. Relying on this method, a promising approach for computing EMs in a completely distributed manner by decomposing the full problem in arbitrarity many sub-tasks is presented. The new methods have been implemented in the freely available software tools FluxAnalyzer and Metatool and benchmark tests in realistic networks emphasise the potential of our proposed algorithms.

  11. Monitoring Anthropogenic Ocean Sound from Shipping Using an Acoustic Sensor Network and a Compressive Sensing Approach.

    PubMed

    Harris, Peter; Philip, Rachel; Robinson, Stephen; Wang, Lian

    2016-03-22

    Monitoring ocean acoustic noise has been the subject of considerable recent study, motivated by the desire to assess the impact of anthropogenic noise on marine life. A combination of measuring ocean sound using an acoustic sensor network and modelling sources of sound and sound propagation has been proposed as an approach to estimating the acoustic noise map within a region of interest. However, strategies for developing a monitoring network are not well established. In this paper, considerations for designing a network are investigated using a simulated scenario based on the measurement of sound from ships in a shipping lane. Using models for the sources of the sound and for sound propagation, a noise map is calculated and measurements of the noise map by a sensor network within the region of interest are simulated. A compressive sensing algorithm, which exploits the sparsity of the representation of the noise map in terms of the sources, is used to estimate the locations and levels of the sources and thence the entire noise map within the region of interest. It is shown that although the spatial resolution to which the sound sources can be identified is generally limited, estimates of aggregated measures of the noise map can be obtained that are more reliable compared with those provided by other approaches.

  12. A novel pattern mining approach for identifying cognitive activity in EEG based functional brain networks.

    PubMed

    Thilaga, M; Vijayalakshmi, R; Nadarajan, R; Nandagopal, D

    2016-06-01

    The complex nature of neuronal interactions of the human brain has posed many challenges to the research community. To explore the underlying mechanisms of neuronal activity of cohesive brain regions during different cognitive activities, many innovative mathematical and computational models are required. This paper presents a novel Common Functional Pattern Mining approach to demonstrate the similar patterns of interactions due to common behavior of certain brain regions. The electrode sites of EEG-based functional brain network are modeled as a set of transactions and node-based complex network measures as itemsets. These itemsets are transformed into a graph data structure called Functional Pattern Graph. By mining this Functional Pattern Graph, the common functional patterns due to specific brain functioning can be identified. The empirical analyses show the efficiency of the proposed approach in identifying the extent to which the electrode sites (transactions) are similar during various cognitive load states. PMID:27401999

  13. Stability analysis of switched cellular neural networks: A mode-dependent average dwell time approach.

    PubMed

    Huang, Chuangxia; Cao, Jie; Cao, Jinde

    2016-10-01

    This paper addresses the exponential stability of switched cellular neural networks by using the mode-dependent average dwell time (MDADT) approach. This method is quite different from the traditional average dwell time (ADT) method in permitting each subsystem to have its own average dwell time. Detailed investigations have been carried out for two cases. One is that all subsystems are stable and the other is that stable subsystems coexist with unstable subsystems. By employing Lyapunov functionals, linear matrix inequalities (LMIs), Jessen-type inequality, Wirtinger-based inequality, reciprocally convex approach, we derived some novel and less conservative conditions on exponential stability of the networks. Comparing to ADT, the proposed MDADT show that the minimal dwell time of each subsystem is smaller and the switched system stabilizes faster. The obtained results extend and improve some existing ones. Moreover, the validness and effectiveness of these results are demonstrated through numerical simulations.

  14. A novel pattern mining approach for identifying cognitive activity in EEG based functional brain networks.

    PubMed

    Thilaga, M; Vijayalakshmi, R; Nadarajan, R; Nandagopal, D

    2016-06-01

    The complex nature of neuronal interactions of the human brain has posed many challenges to the research community. To explore the underlying mechanisms of neuronal activity of cohesive brain regions during different cognitive activities, many innovative mathematical and computational models are required. This paper presents a novel Common Functional Pattern Mining approach to demonstrate the similar patterns of interactions due to common behavior of certain brain regions. The electrode sites of EEG-based functional brain network are modeled as a set of transactions and node-based complex network measures as itemsets. These itemsets are transformed into a graph data structure called Functional Pattern Graph. By mining this Functional Pattern Graph, the common functional patterns due to specific brain functioning can be identified. The empirical analyses show the efficiency of the proposed approach in identifying the extent to which the electrode sites (transactions) are similar during various cognitive load states.

  15. A new generic approach for optoelectronic hardware realizations of neural networks models

    SciTech Connect

    Agranat, A.; Neugebauer, C.F.; Yariv, A.

    1988-09-01

    A new generic approach for realizing neural networks (NN) is presented. The underlying principle of the new approach is to take advantage of the fact that signal processing in silicon is an advanced and mature technology, and to incorporate optics where silicon fails, namely in the interconnectivity problem. The basic idea is described. The system consists of two main subassemblies: a 2D Spatial Light Modulator (SLM) and an integrated circuit to which the authors shall henceforth refer to as the Neural Processor (NP). The synaptic efficacies matrix W is stored in the SLM. Thus by imaging the SLM contents onto an array detector which serves as the input unit of the NP, W is loaded in parallel into the NP. The NP then updates the state of the network in parallel/semiparallel-synchronous/asynchronous manner (depending on the structure of the NP).

  16. A hybrid hopfield network-simulated annealing approach for frequency assignment in satellite communications systems.

    PubMed

    Salcedo-Sanz, Sancho; Santiago-Mozos, Ricardo; Bousoño-Calzón, Carlos

    2004-04-01

    A hybrid Hopfield network-simulated annealing algorithm (HopSA) is presented for the frequency assignment problem (FAP) in satellite communications. The goal of this NP-complete problem is minimizing the cochannel interference between satellite communication systems by rearranging the frequency assignment, for the systems can accommodate the increasing demands. The HopSA algorithm consists of a fast digital Hopfield neural network which manages the problem constraints hybridized with a simulated annealing which improves the quality of the solutions obtained. We analyze the problem and its formulation, describing and discussing the HopSA algorithm and solving a set of benchmark problems. The results obtained are compared with other existing approaches in order to show the performance of the HopSA approach.

  17. Neuro-classification of multi-type Landsat Thematic Mapper data

    NASA Technical Reports Server (NTRS)

    Zhuang, Xin; Engel, Bernard A.; Fernandez, R. N.; Johannsen, Chris J.

    1991-01-01

    Neural networks have been successful in image classification and have shown potential for classifying remotely sensed data. This paper presents classifications of multitype Landsat Thematic Mapper (TM) data using neural networks. The Landsat TM Image for March 23, 1987 with accompanying ground observation data for a study area In Miami County, Indiana, U.S.A. was utilized to assess recognition of crop residues. Principal components and spectral ratio transformations were performed on the TM data. In addition, a layer of the geographic information system (GIS) for the study site was incorporated to generate GIS-enhanced TM data. This paper discusses (1) the performance of neuro-classification on each type of data, (2) how neural networks recognized each type of data as a new image and (3) comparisons of the results for each type of data obtained using neural networks, maximum likelihood, and minimum distance classifiers.

  18. Novel direct and self-regulating approaches to determine optimum growing multi-experts network structure.

    PubMed

    Loo, Chu Kiong; Rajeswari, Mandava; Rao, M V C

    2004-11-01

    This paper presents two novel approaches to determine optimum growing multi-experts network (GMN) structure. The first method called direct method deals with expertise domain and levels in connection with local experts. The growing neural gas (GNG) algorithm is used to cluster the local experts. The concept of error distribution is used to apportion error among the local experts. After reaching the specified size of the network, redundant experts removal algorithm is invoked to prune the size of the network based on the ranking of the experts. However, GMN is not ergonomic due to too many network control parameters. Therefore, a self-regulating GMN (SGMN) algorithm is proposed. SGMN adopts self-adaptive learning rates for gradient-descent learning rules. In addition, SGMN adopts a more rigorous clustering method called fully self-organized simplified adaptive resonance theory in a modified form. Experimental results show SGMN obtains comparative or even better performance than GMN in four benchmark examples, with reduced sensitivity to learning parameters setting. Moreover, both GMN and SGMN outperform the other neural networks and statistical models. The efficacy of SGMN is further justified in three industrial applications and a control problem. It provides consistent results besides holding out a profound potential and promise for building a novel type of nonlinear model consisting of several local linear models. PMID:15565767

  19. A Heuristic Approach to Intra-Brain Communications Using Chaos in a Recurrent Neural Network Model

    NASA Astrophysics Data System (ADS)

    Soma, Ken-ichiro; Mori, Ryota; Sato, Ryuichi; Nara, Shigetoshi

    2011-09-01

    To approach functional roles of chaos in brain, a heuristic model to consider mechanisms of intra-brain communications is proposed. The key idea is to use chaos in firing pattern dynamics of a recurrent neural network consisting of birary state neurons, as propagation medium of pulse signals. Computer experiments and numerical methods are introduced to evaluate signal transport characteristics by calculating correlation functions between sending neurons and receiving neurons of pulse signals.

  20. Systematic Approach to Computational Design of Gene Regulatory Networks with Information Processing Capabilities.

    PubMed

    Moskon, Miha; Mraz, Miha

    2014-01-01

    We present several measures that can be used in de novo computational design of biological systems with information processing capabilities. Their main purpose is to objectively evaluate the behavior and identify the biological information processing structures with the best dynamical properties. They can be used to define constraints that allow one to simplify the design of more complex biological systems. These measures can be applied to existent computational design approaches in synthetic biology, i.e., rational and automatic design approaches. We demonstrate their use on a) the computational models of several basic information processing structures implemented with gene regulatory networks and b) on a modular design of a synchronous toggle switch.

  1. Pathway and Network Approaches for Identification of Cancer Signature Markers from Omics Data

    PubMed Central

    Wang, Jinlian; Zuo, Yiming; Man, Yan-gao; Avital, Itzhak; Stojadinovic, Alexander; Liu, Meng; Yang, Xiaowei; Varghese, Rency S.; Tadesse, Mahlet G; Ressom, Habtom W

    2015-01-01

    The advancement of high throughput omic technologies during the past few years has made it possible to perform many complex assays in a much shorter time than the traditional approaches. The rapid accumulation and wide availability of omic data generated by these technologies offer great opportunities to unravel disease mechanisms, but also presents significant challenges to extract knowledge from such massive data and to evaluate the findings. To address these challenges, a number of pathway and network based approaches have been introduced. This review article evaluates these methods and discusses their application in cancer biomarker discovery using hepatocellular carcinoma (HCC) as an example. PMID:25553089

  2. A radial basis function network approach for the computation of inverse continuous time variant functions.

    PubMed

    Mayorga, René V; Carrera, Jonathan

    2007-06-01

    This Paper presents an efficient approach for the fast computation of inverse continuous time variant functions with the proper use of Radial Basis Function Networks (RBFNs). The approach is based on implementing RBFNs for computing inverse continuous time variant functions via an overall damped least squares solution that includes a novel null space vector for singularities prevention. The singularities avoidance null space vector is derived from developing a sufficiency condition for singularities prevention that conduces to establish some characterizing matrices and an associated performance index.

  3. A Wireless Sensor Network-Based Approach with Decision Support for Monitoring Lake Water Quality.

    PubMed

    Huang, Xiaoci; Yi, Jianjun; Chen, Shaoli; Zhu, Xiaomin

    2015-01-01

    Online monitoring and water quality analysis of lakes are urgently needed. A feasible and effective approach is to use a Wireless Sensor Network (WSN). Lake water environments, like other real world environments, present many changing and unpredictable situations. To ensure flexibility in such an environment, the WSN node has to be prepared to deal with varying situations. This paper presents a WSN self-configuration approach for lake water quality monitoring. The approach is based on the integration of a semantic framework, where a reasoner can make decisions on the configuration of WSN services. We present a WSN ontology and the relevant water quality monitoring context information, which considers its suitability in a pervasive computing environment. We also propose a rule-based reasoning engine that is used to conduct decision support through reasoning techniques and context-awareness. To evaluate the approach, we conduct usability experiments and performance benchmarks. PMID:26610496

  4. A Wireless Sensor Network-Based Approach with Decision Support for Monitoring Lake Water Quality

    PubMed Central

    Huang, Xiaoci; Yi, Jianjun; Chen, Shaoli; Zhu, Xiaomin

    2015-01-01

    Online monitoring and water quality analysis of lakes are urgently needed. A feasible and effective approach is to use a Wireless Sensor Network (WSN). Lake water environments, like other real world environments, present many changing and unpredictable situations. To ensure flexibility in such an environment, the WSN node has to be prepared to deal with varying situations. This paper presents a WSN self-configuration approach for lake water quality monitoring. The approach is based on the integration of a semantic framework, where a reasoner can make decisions on the configuration of WSN services. We present a WSN ontology and the relevant water quality monitoring context information, which considers its suitability in a pervasive computing environment. We also propose a rule-based reasoning engine that is used to conduct decision support through reasoning techniques and context-awareness. To evaluate the approach, we conduct usability experiments and performance benchmarks. PMID:26610496

  5. Effective degree Markov-chain approach for discrete-time epidemic processes on uncorrelated networks

    NASA Astrophysics Data System (ADS)

    Cai, Chao-Ran; Wu, Zhi-Xi; Guan, Jian-Yue

    2014-11-01

    Recently, Gómez et al. proposed a microscopic Markov-chain approach (MMCA) [S. Gómez, J. Gómez-Gardeñes, Y. Moreno, and A. Arenas, Phys. Rev. E 84, 036105 (2011), 10.1103/PhysRevE.84.036105] to the discrete-time susceptible-infected-susceptible (SIS) epidemic process and found that the epidemic prevalence obtained by this approach agrees well with that by simulations. However, we found that the approach cannot be straightforwardly extended to a susceptible-infected-recovered (SIR) epidemic process (due to its irreversible property), and the epidemic prevalences obtained by MMCA and Monte Carlo simulations do not match well when the infection probability is just slightly above the epidemic threshold. In this contribution we extend the effective degree Markov-chain approach, proposed for analyzing continuous-time epidemic processes [J. Lindquist, J. Ma, P. Driessche, and F. Willeboordse, J. Math. Biol. 62, 143 (2011), 10.1007/s00285-010-0331-2], to address discrete-time binary-state (SIS) or three-state (SIR) epidemic processes on uncorrelated complex networks. It is shown that the final epidemic size as well as the time series of infected individuals obtained from this approach agree very well with those by Monte Carlo simulations. Our results are robust to the change of different parameters, including the total population size, the infection probability, the recovery probability, the average degree, and the degree distribution of the underlying networks.

  6. Hybrid swarm intelligence optimization approach for optimal data storage position identification in wireless sensor networks.

    PubMed

    Mohanasundaram, Ranganathan; Periasamy, Pappampalayam Sanmugam

    2015-01-01

    The current high profile debate with regard to data storage and its growth have become strategic task in the world of networking. It mainly depends on the sensor nodes called producers, base stations, and also the consumers (users and sensor nodes) to retrieve and use the data. The main concern dealt here is to find an optimal data storage position in wireless sensor networks. The works that have been carried out earlier did not utilize swarm intelligence based optimization approaches to find the optimal data storage positions. To achieve this goal, an efficient swam intelligence approach is used to choose suitable positions for a storage node. Thus, hybrid particle swarm optimization algorithm has been used to find the suitable positions for storage nodes while the total energy cost of data transmission is minimized. Clustering-based distributed data storage is utilized to solve clustering problem using fuzzy-C-means algorithm. This research work also considers the data rates and locations of multiple producers and consumers to find optimal data storage positions. The algorithm is implemented in a network simulator and the experimental results show that the proposed clustering and swarm intelligence based ODS strategy is more effective than the earlier approaches.

  7. Hybrid Swarm Intelligence Optimization Approach for Optimal Data Storage Position Identification in Wireless Sensor Networks

    PubMed Central

    Mohanasundaram, Ranganathan; Periasamy, Pappampalayam Sanmugam

    2015-01-01

    The current high profile debate with regard to data storage and its growth have become strategic task in the world of networking. It mainly depends on the sensor nodes called producers, base stations, and also the consumers (users and sensor nodes) to retrieve and use the data. The main concern dealt here is to find an optimal data storage position in wireless sensor networks. The works that have been carried out earlier did not utilize swarm intelligence based optimization approaches to find the optimal data storage positions. To achieve this goal, an efficient swam intelligence approach is used to choose suitable positions for a storage node. Thus, hybrid particle swarm optimization algorithm has been used to find the suitable positions for storage nodes while the total energy cost of data transmission is minimized. Clustering-based distributed data storage is utilized to solve clustering problem using fuzzy-C-means algorithm. This research work also considers the data rates and locations of multiple producers and consumers to find optimal data storage positions. The algorithm is implemented in a network simulator and the experimental results show that the proposed clustering and swarm intelligence based ODS strategy is more effective than the earlier approaches. PMID:25734182

  8. A recursive network approach can identify constitutive regulatory circuits in gene expression data

    NASA Astrophysics Data System (ADS)

    Blasi, Monica Francesca; Casorelli, Ida; Colosimo, Alfredo; Blasi, Francesco Simone; Bignami, Margherita; Giuliani, Alessandro

    2005-03-01

    The activity of the cell is often coordinated by the organisation of proteins into regulatory circuits that share a common function. Genome-wide expression profiles might contain important information on these circuits. Current approaches for the analysis of gene expression data include clustering the individual expression measurements and relating them to biological functions as well as modelling and simulation of gene regulation processes by additional computer tools. The identification of the regulative programmes from microarray experiments is limited, however, by the intrinsic difficulty of linear methods to detect low-variance signals and by the sensitivity of the different approaches. Here we face the problem of recognising invariant patterns of correlations among gene expression reminiscent of regulation circuits. We demonstrate that a recursive neural network approach can identify genetic regulation circuits from expression data for ribosomal and genome stability genes. The proposed method, by greatly enhancing the sensitivity of microarray studies, allows the identification of important aspects of genetic regulation networks and might be useful for the discrimination of the different players involved in regulation circuits. Our results suggest that the constitutive regulatory networks involved in the generic organisation of the cell display a high degree of clustering depending on a modular architecture.

  9. Layers of epistasis: genome-wide regulatory networks and network approaches to genome-wide association studies

    PubMed Central

    Cowper-Sal·lari, Richard; Cole, Michael D.; Karagas, Margaret R.; Lupien, Mathieu; Moore, Jason H.

    2010-01-01

    The conceptual foundation of the genome-wide association study (GWAS) has advanced unchecked since its conception. A revision might seem premature as the potential of GWAS has not been fully realized. Multiple technical and practical limitations need to be overcome before GWAS can be fairly criticized. But with the completion of hundreds of studies and a deeper understanding of the genetic architecture of disease, warnings are being raised. The results compiled to date indicate that risk-associated variants lie predominantly in non-coding regions of the genome. Additionally, alternative methodologies are uncovering large and heterogeneous sets of rare variants underlying disease. The fear is that, even in its fulfilment, the current GWAS paradigm might be incapable of dissecting all kinds of phenotypes. In the following text we review several initiatives that aim to overcome these limitations. The overarching theme of these studies is the inclusion of biological knowledge to both the analysis and interpretation of genotyping data. GWAS is uninformed of biology by design and although there is some virtue in its simplicity it is also its most conspicuous deficiency. We propose a framework in which to integrate these novel approaches, both empirical and theoretical, in the form of a genome-wide regulatory network (GWRN). By processing experimental data into networks, emerging data types based on chromatin-immunoprecipitation are made computationally tractable. This will give GWAS re-analysis efforts the most current and relevant substrates, and root them firmly on our knowledge of human disease. PMID:21197657

  10. A variational approach to the growth dynamics of pre-stressed actin filament networks.

    PubMed

    John, Karin; Stöter, Thomas; Misbah, Chaouqi

    2016-09-21

    In order to model the growth dynamics of elastic bodies with residual stresses a thermodynamically consistent approach is needed such that the cross-coupling between growth and mechanics can be correctly described. In the present work we apply a variational principle to the formulation of the interfacial growth dynamics of dendritic actin filament networks growing from biomimetic beads, an experimentally well studied system, where the buildup of residual stresses governs the network growth. We first introduce the material model for the network via a strain energy density for an isotropic weakly nonlinear elastic material and then derive consistently from this model the dynamic equations for the interfaces, i.e. for a polymerizing internal interface in contact with the bead and a depolymerizing external interface directed towards the solvent. We show that (i) this approach automatically preserves thermodynamic symmetry-properties, which is not the case for the often cited 'rubber-band-model' (Sekimoto et al 2004 Eur. Phys. J. E 13 247-59, Plastino et al 2004 Eur. Biophys. J. 33 310-20) and (ii) leads to a robust morphological instability of the treadmilling network interfaces. The nature of the instability depends on the interplay of the two dynamic interfaces. Depending on the biochemical conditions the network envelope evolves into a comet-like shape (i.e. the actin envelope thins out at one side and thickens on the opposite side of the bead) via a varicose instability or it breaks the symmetry via higher order zigzag modes. We conclude that morphological instabilities due to mechano-chemical coupling mechanisms and the presences of mechancial pre-stresses can play a major role in locally organizing the cytoskeleton of living cells. PMID:27420637

  11. A variational approach to the growth dynamics of pre-stressed actin filament networks

    NASA Astrophysics Data System (ADS)

    John, Karin; Stöter, Thomas; Misbah, Chaouqi

    2016-09-01

    In order to model the growth dynamics of elastic bodies with residual stresses a thermodynamically consistent approach is needed such that the cross-coupling between growth and mechanics can be correctly described. In the present work we apply a variational principle to the formulation of the interfacial growth dynamics of dendritic actin filament networks growing from biomimetic beads, an experimentally well studied system, where the buildup of residual stresses governs the network growth. We first introduce the material model for the network via a strain energy density for an isotropic weakly nonlinear elastic material and then derive consistently from this model the dynamic equations for the interfaces, i.e. for a polymerizing internal interface in contact with the bead and a depolymerizing external interface directed towards the solvent. We show that (i) this approach automatically preserves thermodynamic symmetry-properties, which is not the case for the often cited ‘rubber-band-model’ (Sekimoto et al 2004 Eur. Phys. J. E 13 247–59, Plastino et al 2004 Eur. Biophys. J. 33 310–20) and (ii) leads to a robust morphological instability of the treadmilling network interfaces. The nature of the instability depends on the interplay of the two dynamic interfaces. Depending on the biochemical conditions the network envelope evolves into a comet-like shape (i.e. the actin envelope thins out at one side and thickens on the opposite side of the bead) via a varicose instability or it breaks the symmetry via higher order zigzag modes. We conclude that morphological instabilities due to mechano-chemical coupling mechanisms and the presences of mechancial pre-stresses can play a major role in locally organizing the cytoskeleton of living cells.

  12. A variational approach to the growth dynamics of pre-stressed actin filament networks

    NASA Astrophysics Data System (ADS)

    John, Karin; Stöter, Thomas; Misbah, Chaouqi

    2016-09-01

    In order to model the growth dynamics of elastic bodies with residual stresses a thermodynamically consistent approach is needed such that the cross-coupling between growth and mechanics can be correctly described. In the present work we apply a variational principle to the formulation of the interfacial growth dynamics of dendritic actin filament networks growing from biomimetic beads, an experimentally well studied system, where the buildup of residual stresses governs the network growth. We first introduce the material model for the network via a strain energy density for an isotropic weakly nonlinear elastic material and then derive consistently from this model the dynamic equations for the interfaces, i.e. for a polymerizing internal interface in contact with the bead and a depolymerizing external interface directed towards the solvent. We show that (i) this approach automatically preserves thermodynamic symmetry-properties, which is not the case for the often cited ‘rubber-band-model’ (Sekimoto et al 2004 Eur. Phys. J. E 13 247-59, Plastino et al 2004 Eur. Biophys. J. 33 310-20) and (ii) leads to a robust morphological instability of the treadmilling network interfaces. The nature of the instability depends on the interplay of the two dynamic interfaces. Depending on the biochemical conditions the network envelope evolves into a comet-like shape (i.e. the actin envelope thins out at one side and thickens on the opposite side of the bead) via a varicose instability or it breaks the symmetry via higher order zigzag modes. We conclude that morphological instabilities due to mechano-chemical coupling mechanisms and the presences of mechancial pre-stresses can play a major role in locally organizing the cytoskeleton of living cells.

  13. Heterogeneous Network Edge Prediction: A Data Integration Approach to Prioritize Disease-Associated Genes.

    PubMed

    Himmelstein, Daniel S; Baranzini, Sergio E

    2015-07-01

    The first decade of Genome Wide Association Studies (GWAS) has uncovered a wealth of disease-associated variants. Two important derivations will be the translation of this information into a multiscale understanding of pathogenic variants and leveraging existing data to increase the power of existing and future studies through prioritization. We explore edge prediction on heterogeneous networks--graphs with multiple node and edge types--for accomplishing both tasks. First we constructed a network with 18 node types--genes, diseases, tissues, pathophysiologies, and 14 MSigDB (molecular signatures database) collections--and 19 edge types from high-throughput publicly-available resources. From this network composed of 40,343 nodes and 1,608,168 edges, we extracted features that describe the topology between specific genes and diseases. Next, we trained a model from GWAS associations and predicted the probability of association between each protein-coding gene and each of 29 well-studied complex diseases. The model, which achieved 132-fold enrichment in precision at 10% recall, outperformed any individual domain, highlighting the benefit of integrative approaches. We identified pleiotropy, transcriptional signatures of perturbations, pathways, and protein interactions as influential mechanisms explaining pathogenesis. Our method successfully predicted the results (with AUROC = 0.79) from a withheld multiple sclerosis (MS) GWAS despite starting with only 13 previously associated genes. Finally, we combined our network predictions with statistical evidence of association to propose four novel MS genes, three of which (JAK2, REL, RUNX3) validated on the masked GWAS. Furthermore, our predictions provide biological support highlighting REL as the causal gene within its gene-rich locus. Users can browse all predictions online (http://het.io). Heterogeneous network edge prediction effectively prioritized genetic associations and provides a powerful new approach for data

  14. A social network approach to analyzing water governance: The case of the Mkindo catchment, Tanzania

    NASA Astrophysics Data System (ADS)

    Stein, C.; Ernstson, H.; Barron, J.

    The governance dimension of water resources management is just as complex and interconnected as the hydrological processes it aims to influence. There is an increasing need (i) to understand the multi-stakeholder governance arrangements that emerge from the cross-scale nature and multifunctional role of water; and (ii) to develop appropriate research tools to analyze them. In this study we demonstrate how social network analysis (SNA), a well-established technique from sociology and organizational research, can be used to empirically map collaborative social networks between actors that either directly or indirectly influence water flows in the Mkindo catchment in Tanzania. We assess how these collaborative social networks affect the capacity to govern water in this particular catchment and explore how knowledge about such networks can be used to facilitate more effective or adaptive water resources management. The study is novel as it applies social network analysis not only to organizations influencing blue water (the liquid water in rivers, lakes and aquifers) but also green water (the soil moisture used by plants). Using a questionnaire and semi-structured interviews, we generated social network data of 70 organizations, ranging from local resource users and village leaders, to higher-level governmental agencies, universities and NGOs. Results show that there is no organization that coordinates the various land and water related activities at the catchment scale. Furthermore, an important result is that village leader play a crucial role linking otherwise disconnected actors, but that they are not adequately integrated into the formal water governance system. Water user associations (WUAs) are in the process of establishment and could bring together actors currently not part of the formal governance system. However, the establishment of WUAs seems to follow a top-down approach not considering the existing informal organization of water users that are revealed

  15. Parametric motion control of robotic arms: A biologically based approach using neural networks

    NASA Technical Reports Server (NTRS)

    Bock, O.; D'Eleuterio, G. M. T.; Lipitkas, J.; Grodski, J. J.

    1993-01-01

    A neural network based system is presented which is able to generate point-to-point movements of robotic manipulators. The foundation of this approach is the use of prototypical control torque signals which are defined by a set of parameters. The parameter set is used for scaling and shaping of these prototypical torque signals to effect a desired outcome of the system. This approach is based on neurophysiological findings that the central nervous system stores generalized cognitive representations of movements called synergies, schemas, or motor programs. It has been proposed that these motor programs may be stored as torque-time functions in central pattern generators which can be scaled with appropriate time and magnitude parameters. The central pattern generators use these parameters to generate stereotypical torque-time profiles, which are then sent to the joint actuators. Hence, only a small number of parameters need to be determined for each point-to-point movement instead of the entire torque-time trajectory. This same principle is implemented for controlling the joint torques of robotic manipulators where a neural network is used to identify the relationship between the task requirements and the torque parameters. Movements are specified by the initial robot position in joint coordinates and the desired final end-effector position in Cartesian coordinates. This information is provided to the neural network which calculates six torque parameters for a two-link system. The prototypical torque profiles (one per joint) are then scaled by those parameters. After appropriate training of the network, our parametric control design allowed the reproduction of a trained set of movements with relatively high accuracy, and the production of previously untrained movements with comparable accuracy. We conclude that our approach was successful in discriminating between trained movements and in generalizing to untrained movements.

  16. A dual neural network ensemble approach for multiclass brain tumor classification.

    PubMed

    Sachdeva, Jainy; Kumar, Vinod; Gupta, Indra; Khandelwal, Niranjan; Ahuja, Chirag Kamal

    2012-11-01

    The present study is conducted to develop an interactive computer aided diagnosis (CAD) system for assisting radiologists in multiclass classification of brain tumors. In this paper, primary brain tumors such as astrocytoma, glioblastoma multiforme, childhood tumor-medulloblastoma, meningioma and secondary tumor-metastases along with normal regions are classified by a dual level neural network ensemble. Two hundred eighteen texture and intensity features are extracted from 856 segmented regions of interest (SROIs) and are taken as input. PCA is used for reduction of dimensionality of the feature space. The study is performed on a diversified dataset of 428 post contrast T1-weighted magnetic resonance images of 55 patients. Two sets of experiments are performed. In the first experiment, random selection is used which may allow SROIs from the same patient having similar characteristics to appear in both training and testing simultaneously. In the second experiment, not even a single SROI from the same patient is common during training and testing. In the first experiment, it is observed that the dual level neural network ensemble has enhanced the overall accuracy to 95.85% compared with 91.97% of single level artificial neural network. The proposed method delivers high accuracy for each class. The accuracy obtained for each class is: astrocytoma 96.29%, glioblastoma multiforme 96.15%, childhood tumor-medulloblastoma 90%, meningioma 93.00%, secondary tumor-metastases 96.67% and normal regions 97.41%. This study reveals that dual level neural network ensemble provides better results than the single level artificial neural network. In the second experiment, overall classification accuracy of 90.4% was achieved. The generalization ability of this approach can be tested by analyzing larger datasets. The extensive training will also further improve the performance of the proposed dual network ensemble. Quantitative results obtained from the proposed method will assist the

  17. A neural learning approach for adaptive image restoration using a fuzzy model-based network architecture.

    PubMed

    Wong, H S; Guan, L

    2001-01-01

    We address the problem of adaptive regularization in image restoration by adopting a neural-network learning approach. Instead of explicitly specifying the local regularization parameter values, they are regarded as network weights which are then modified through the supply of appropriate training examples. The desired response of the network is in the form of a gray level value estimate of the current pixel using weighted order statistic (WOS) filter. However, instead of replacing the previous value with this estimate, this is used to modify the network weights, or equivalently, the regularization parameters such that the restored gray level value produced by the network is closer to this desired response. In this way, the single WOS estimation scheme can allow appropriate parameter values to emerge under different noise conditions, rather than requiring their explicit selection in each occasion. In addition, we also consider the separate regularization of edges and textures due to their different noise masking capabilities. This in turn requires discriminating between these two feature types. Due to the inability of conventional local variance measures to distinguish these two high variance features, we propose the new edge-texture characterization (ETC) measure which performs this discrimination based on a scalar value only. This is then incorporated into a fuzzified form of the previous neural network which determines the degree of membership of each high variance pixel in two fuzzy sets, the EDGE and TEXTURE fuzzy sets, from the local ETC value, and then evaluates the appropriate regularization parameter by appropriately combining these two membership function values.

  18. Catastrophic approach to satellite imagery utilization on network-based flight simulators

    NASA Astrophysics Data System (ADS)

    Levin, Eugene; Ternovskiy, Igor V.

    2001-11-01

    Presently, there are many technological and industrial efforts for development of virtual flight simulators, usually based on networked technologies. In order to solve the problems of real time availability and realistic quality of simulators, source data images and digital terrain models (DTM) should have some generalized structure, which supposes different imagery resolution and different amount of detail on each level of 3D simulation. One of the central problems is geotruthing of satellite imagery with realistic accuracy requirements with respect to DTM. Traditionally such geotruthing can be achieved by means of geo control points measurements. This process is labor intensive and requires special photogrammetric operator skills. In order to avoid such a process an algorithm of terrain and image models singularity's recognition based on Catastrophe theory is investigated in this paper. This approach does not require training but operates with direct comparison of the analytical manifolds from DTM with those actually extracted from the image. The technology described in this paper, the Catastrophe Approach, and algorithms of satellite imagery treatment may be implemented in a multi-level image pyramid flight simulators. Theoretical approaches and practical realization indicates that the Catastrophe Approach is easy- to-use for a final customer and can be implemented on-line to networked flight simulators.

  19. A majorization-minimization approach to design of power distribution networks

    SciTech Connect

    Johnson, Jason K; Chertkov, Michael

    2010-01-01

    We consider optimization approaches to design cost-effective electrical networks for power distribution. This involves a trade-off between minimizing the power loss due to resistive heating of the lines and minimizing the construction cost (modeled by a linear cost in the number of lines plus a linear cost on the conductance of each line). We begin with a convex optimization method based on the paper 'Minimizing Effective Resistance of a Graph' [Ghosh, Boyd & Saberi]. However, this does not address the Alternating Current (AC) realm and the combinatorial aspect of adding/removing lines of the network. Hence, we consider a non-convex continuation method that imposes a concave cost of the conductance of each line thereby favoring sparser solutions. By varying a parameter of this penalty we extrapolate from the convex problem (with non-sparse solutions) to the combinatorial problem (with sparse solutions). This is used as a heuristic to find good solutions (local minima) of the non-convex problem. To perform the necessary non-convex optimization steps, we use the majorization-minimization algorithm that performs a sequence of convex optimizations obtained by iteratively linearizing the concave part of the objective. A number of examples are presented which suggest that the overall method is a good heuristic for network design. We also consider how to obtain sparse networks that are still robust against failures of lines and/or generators.

  20. The multiscale importance of road segments in a network disruption scenario: a risk-based approach.

    PubMed

    Freiria, Susana; Tavares, Alexandre O; Pedro Julião, Rui

    2015-03-01

    This article addresses the problem of the multiscale importance of road networks, with the aim of helping to establish a more resilient network in the event of a road disruption scenario. A new model for identifying the most important roads is described and applied on a local and regional scale. The work presented here represents a step forward, since it focuses on the interaction between identifying the most important roads in a network that connect people and health services, the specificity of the natural hazards that threaten the normal functioning of the network, and an assessment of the consequences of three real-world interruptions from a multiscale perspective. The case studies concern three different past events: road interruptions due to a flood, a forest fire, and a mass movement. On the basis of the results obtained, it is possible to establish the roads for which risk management should be a priority. The multiscale perspective shows that in a road interruption the regional system may have the capacity to reorganize itself, although the interruption may have consequences for local dynamics. Coordination between local and regional scales is therefore important. The model proposed here allows for the scaling of emergency response facilities and human and physical resources. It represents an innovative approach to defining priorities, not only in the prevention phase but also in terms of the response to natural disasters, such as awareness of the consequences of road disruption for the rescue services sent out to local communities. PMID:25263956

  1. The multiscale importance of road segments in a network disruption scenario: a risk-based approach.

    PubMed

    Freiria, Susana; Tavares, Alexandre O; Pedro Julião, Rui

    2015-03-01

    This article addresses the problem of the multiscale importance of road networks, with the aim of helping to establish a more resilient network in the event of a road disruption scenario. A new model for identifying the most important roads is described and applied on a local and regional scale. The work presented here represents a step forward, since it focuses on the interaction between identifying the most important roads in a network that connect people and health services, the specificity of the natural hazards that threaten the normal functioning of the network, and an assessment of the consequences of three real-world interruptions from a multiscale perspective. The case studies concern three different past events: road interruptions due to a flood, a forest fire, and a mass movement. On the basis of the results obtained, it is possible to establish the roads for which risk management should be a priority. The multiscale perspective shows that in a road interruption the regional system may have the capacity to reorganize itself, although the interruption may have consequences for local dynamics. Coordination between local and regional scales is therefore important. The model proposed here allows for the scaling of emergency response facilities and human and physical resources. It represents an innovative approach to defining priorities, not only in the prevention phase but also in terms of the response to natural disasters, such as awareness of the consequences of road disruption for the rescue services sent out to local communities.

  2. A review of sulfide emissions in sewer networks: overall approach and systemic modelling.

    PubMed

    Carrera, Lucie; Springer, Fanny; Lipeme-Kouyi, Gislain; Buffiere, Pierre

    2016-01-01

    The problems related to hydrogen sulfide in terms of deterioration of sewer networks, toxicity and odor nuisance have become very clear to the network stakeholders and the public. The hydraulic and (bio)chemical phenomena and parameters controlling sulfide formation, emission and their incidences in sewer networks are very complex. Recent research studies have been developed in gravity and pressure sewers and some transfer models have been published. Nevertheless, the models do not take into account all the physical phenomena influencing the emission process. After summing up the main scientific knowledge concerning the production, oxidation, transfer and emission processes, the present review includes: (i) a synthetic analysis of sulfide and hydrogen sulfide emission models in sewer networks, (ii) an estimation of their limit, (iii) perspectives to improve the modelling approach. It shows that sulfide formation and uptake models still need refinements especially for some phenomena such as liquid to gas mass transfer. Transfer models that have been published so far are purposely simplified and valid for simple systems. More efforts have to be undertaken in order to better understand the mechanisms and the dynamics of hydrogen sulfide production and emission in real conditions. PMID:27003062

  3. An improved least cost routing approach for WDM optical network without wavelength converters

    NASA Astrophysics Data System (ADS)

    Bonani, Luiz H.; Forghani-elahabad, Majid

    2016-12-01

    Routing and wavelength assignment (RWA) problem has been an attractive problem in optical networks, and consequently several algorithms have been proposed in the literature to solve this problem. The most known techniques for the dynamic routing subproblem are fixed routing, fixed-alternate routing, and adaptive routing methods. The first one leads to a high blocking probability (BP) and the last one includes a high computational complexity and requires immense backing from the control and management protocols. The second one suggests a trade-off between performance and complexity, and hence we consider it to improve in our work. In fact, considering the RWA problem in a wavelength routed optical network with no wavelength converter, an improved technique is proposed for the routing subproblem in order to decrease the BP of the network. Based on fixed-alternate approach, the first k shortest paths (SPs) between each node pair is determined. We then rearrange the SPs according to a newly defined cost for the links and paths. Upon arriving a connection request, the sorted paths are consecutively checked for an available wavelength according to the most-used technique. We implement our proposed algorithm and the least-hop fixed-alternate algorithm to show how the rearrangement of SPs contributes to a lower BP in the network. The numerical results demonstrate the efficiency of our proposed algorithm in comparison with the others, considering different number of available wavelengths.

  4. A Dynamic Intrusion Detection System Based on Multivariate Hotelling's T2 Statistics Approach for Network Environments

    PubMed Central

    Avalappampatty Sivasamy, Aneetha; Sundan, Bose

    2015-01-01

    The ever expanding communication requirements in today's world demand extensive and efficient network systems with equally efficient and reliable security features integrated for safe, confident, and secured communication and data transfer. Providing effective security protocols for any network environment, therefore, assumes paramount importance. Attempts are made continuously for designing more efficient and dynamic network intrusion detection models. In this work, an approach based on Hotelling's T2 method, a multivariate statistical analysis technique, has been employed for intrusion detection, especially in network environments. Components such as preprocessing, multivariate statistical analysis, and attack detection have been incorporated in developing the multivariate Hotelling's T2 statistical model and necessary profiles have been generated based on the T-square distance metrics. With a threshold range obtained using the central limit theorem, observed traffic profiles have been classified either as normal or attack types. Performance of the model, as evaluated through validation and testing using KDD Cup'99 dataset, has shown very high detection rates for all classes with low false alarm rates. Accuracy of the model presented in this work, in comparison with the existing models, has been found to be much better. PMID:26357668

  5. A Network Approach to Fracture: The Effect of Heterogeneity and Loading Conditions

    NASA Astrophysics Data System (ADS)

    Reuschlé, T.

    Fracture in a heterogeneous solid is simulated on a triangular network of bonds which figure the potential cracks of the medium. Heterogeneity is introduced by assuming a statistical strength distribution for the bonds. External stresses are applied to the network and the evolution of the bond population is analyzed when the stresses are increased. Bond-breaking is controlled by the crack-exten sion force which takes into account crack interactions by using an iterative procedure. Crack propaga tion leads to the coalescence of broken bonds crack clusters are formed. By using this kind of approach which combines fracture mechanics and network modelling, we are able to simulate the rupture of a rock specimen under various loading conditions without heavy computation. We discuss physical properties of the rupture process by examining the rupture stress and the geometric properties of the macroscopic fracture and their dependence on loading conditions and heterogeneity. Analysis of the geometric characteristics shows that the number of broken bonds can be fitted by a power law of the lattice size, the exponent depending on the loading conditions. Furthermore, an approximate computation of the mechanical response of the network demonstrates that the threshold secant modulus may be a more legitimate choice for a damage parameter in terms of system size independence.

  6. Triangular Alignment (TAME). A Tensor-based Approach for Higher-order Network Alignment

    SciTech Connect

    Mohammadi, Shahin; Gleich, David F.; Kolda, Tamara G.; Grama, Ananth

    2015-11-01

    Network alignment is an important tool with extensive applications in comparative interactomics. Traditional approaches aim to simultaneously maximize the number of conserved edges and the underlying similarity of aligned entities. We propose a novel formulation of the network alignment problem that extends topological similarity to higher-order structures and provide a new objective function that maximizes the number of aligned substructures. This objective function corresponds to an integer programming problem, which is NP-hard. Consequently, we approximate this objective function as a surrogate function whose maximization results in a tensor eigenvalue problem. Based on this formulation, we present an algorithm called Triangular AlignMEnt (TAME), which attempts to maximize the number of aligned triangles across networks. We focus on alignment of triangles because of their enrichment in complex networks; however, our formulation and resulting algorithms can be applied to general motifs. Using a case study on the NAPABench dataset, we show that TAME is capable of producing alignments with up to 99% accuracy in terms of aligned nodes. We further evaluate our method by aligning yeast and human interactomes. Our results indicate that TAME outperforms the state-of-art alignment methods both in terms of biological and topological quality of the alignments.

  7. Towards stable kinetics of large metabolic networks: Nonequilibrium potential function approach.

    PubMed

    Chen, Yong-Cong; Yuan, Ruo-Shi; Ao, Ping; Xu, Min-Juan; Zhu, Xiao-Mei

    2016-06-01

    While the biochemistry of metabolism in many organisms is well studied, details of the metabolic dynamics are not fully explored yet. Acquiring adequate in vivo kinetic parameters experimentally has always been an obstacle. Unless the parameters of a vast number of enzyme-catalyzed reactions happened to fall into very special ranges, a kinetic model for a large metabolic network would fail to reach a steady state. In this work we show that a stable metabolic network can be systematically established via a biologically motivated regulatory process. The regulation is constructed in terms of a potential landscape description of stochastic and nongradient systems. The constructed process draws enzymatic parameters towards stable metabolism by reducing the change in the Lyapunov function tied to the stochastic fluctuations. Biologically it can be viewed as interplay between the flux balance and the spread of workloads on the network. Our approach allows further constraints such as thermodynamics and optimal efficiency. We choose the central metabolism of Methylobacterium extorquens AM1 as a case study to demonstrate the effectiveness of the approach. Growth efficiency on carbon conversion rate versus cell viability and futile cycles is investigated in depth. PMID:27415300

  8. Calibration of the clock-phase biases of GNSS networks: the closure-ambiguity approach

    NASA Astrophysics Data System (ADS)

    Lannes, A.; Prieur, J.-L.

    2013-08-01

    In global navigation satellite systems (GNSS), the problem of retrieving clock-phase biases from network data has a basic rank defect. We analyse the different ways of removing this rank defect, and define a particular strategy for obtaining these phase biases in a standard form. The minimum-constrained problem to be solved in the least-squares (LS) sense depends on some integer vector which can be fixed in an arbitrary manner. We propose to solve the problem via an undifferenced approach based on the notion of closure ambiguity. We present a theoretical justification of this closure-ambiguity approach (CAA), and the main elements for a practical implementation. The links with other methods are also established. We analyse all those methods in a unified interpretative framework, and derive functional relations between the corresponding solutions and our CAA solution. This could be interesting for many GNSS applications like real-time kinematic PPP for instance. To compare the methods providing LS estimates of clock-phase biases, we define a particular solution playing the role of reference solution. For this solution, when a phase bias is estimated for the first time, its fractional part is confined to the one-cycle width interval centred on zero; the integer-ambiguity set is modified accordingly. Our theoretical study is illustrated with some simple and generic examples; it could have applications in data processing of most GNSS networks, and particularly global networks using GPS, Glonass, Galileo, or BeiDou/Compass satellites.

  9. TCP with source traffic shaping (TCP-STS): an approach for network congestion reduction

    NASA Astrophysics Data System (ADS)

    Elaywe, Ali H.; Kamal, Ahmed E.

    2002-07-01

    The Transmission Control Protocol (TCP), provides flow control functions which are based on the window mechanism. Packet losses are detected by various mechanisms, such as timeouts and duplicate acknowledgements, and are then recovered from using different techniques. A problem that arises with the use of window based mechanisms is that the availability of a large number of credits at the source may cause a source to flood the network with back-to-back packets, which may drive the network into congestion, especially if multiple sources become active at the same time. In this paper we propose a new approach for congestion reduction. The approach works by shaping the traffic at the TCP source, such that the basic TCP flow control mechanism is still preserved, but the packet transmissions are spaced in time in order to prevent a sudden surge of traffic from overflowing the routers' buffers. Simulation results show that this technique can result in an improved network performance, in terms of reduced mean delay, delay variance, and packet dropping ratio.

  10. Controlled recovery of phylogenetic communities from an evolutionary model using a network approach

    NASA Astrophysics Data System (ADS)

    Sousa, Arthur M. Y. R.; Vieira, André P.; Prado, Carmen P. C.; Andrade, Roberto F. S.

    2016-04-01

    This works reports the use of a complex network approach to produce a phylogenetic classification tree of a simple evolutionary model. This approach has already been used to treat proteomic data of actual extant organisms, but an investigation of its reliability to retrieve a traceable evolutionary history is missing. The used evolutionary model includes key ingredients for the emergence of groups of related organisms by differentiation through random mutations and population growth, but purposefully omits other realistic ingredients that are not strictly necessary to originate an evolutionary history. This choice causes the model to depend only on a small set of parameters, controlling the mutation probability and the population of different species. Our results indicate that for a set of parameter values, the phylogenetic classification produced by the used framework reproduces the actual evolutionary history with a very high average degree of accuracy. This includes parameter values where the species originated by the evolutionary dynamics have modular structures. In the more general context of community identification in complex networks, our model offers a simple setting for evaluating the effects, on the efficiency of community formation and identification, of the underlying dynamics generating the network itself.

  11. An artificial neural network approach and sensitivity analysis in predicting skeletal muscle forces.

    PubMed

    Vilimek, Miloslav

    2014-01-01

    This paper presents the use of an artificial neural network (NN) approach for predicting the muscle forces around the elbow joint. The main goal was to create an artificial NN which could predict the musculotendon forces for any general muscle without significant errors. The input parameters for the network were morphological and anatomical musculotendon parameters, plus an activation level experimentally measured during a flexion/extension movement in the elbow. The muscle forces calculated by the 'Virtual Muscle System' provide the output. The cross-correlation coefficient expressing the ability of an artificial NN to predict the "true" force was in the range 0.97-0.98. A sensitivity analysis was used to eliminate the less sensitive inputs, and the final number of inputs for a sufficient prediction was nine. A variant of an artificial NN for a single specific muscle was also studied. The artificial NN for one specific muscle gives better results than a network for general muscles. This method is a good alternative to other approaches to calculation of muscle force.

  12. [A non-classical approach to medical practices: Michel Foucault and Actor-Network Theory].

    PubMed

    Bińczyk, E

    2001-01-01

    The text presents an analysis of medical practices stemming from two sources: Michel Foucault's conception and the research of Annemarie Mol and John Law, representatives of a trend known as Actor-Network Theory. Both approaches reveal significant theoretical kinship: they can be successfully consigned to the framework of non-classical sociology of science. I initially refer to the cited conceptions as a version of non-classical sociology of medicine. The identity of non-classical sociology of medicine hinges on the fact that it undermines the possibility of objective definitions of disease, health and body. These are rather approached as variable social and historical phenomena, co-constituted by medical practices. To both Foucault and Mol the main object of interest was not medicine as such, but rather the network of medical practices. Mol and Law sketch a new theoretical perspective for the analysis of medical practices. They attempt to go beyond the dichotomous scheme of thinking about the human body as an object of medical research and the subject of private experience. Research on patients suffering blood-sugar deficiency provide the empirical background for the thesis of Actor-Network Theory representatives. Michel Foucault's conceptions are extremely critical of medical practices. The French researcher describes the processes of 'medicalising' Western society as the emergence of a new type of power. He attempts to sensitise the reader to the ethical dimension of the processes of medicalising society.

  13. Controlled recovery of phylogenetic communities from an evolutionary model using a network approach.

    PubMed

    Sousa, Arthur M Y R; Vieira, André P; Prado, Carmen P C; Andrade, Roberto F S

    2016-04-01

    This works reports the use of a complex network approach to produce a phylogenetic classification tree of a simple evolutionary model. This approach has already been used to treat proteomic data of actual extant organisms, but an investigation of its reliability to retrieve a traceable evolutionary history is missing. The used evolutionary model includes key ingredients for the emergence of groups of related organisms by differentiation through random mutations and population growth, but purposefully omits other realistic ingredients that are not strictly necessary to originate an evolutionary history. This choice causes the model to depend only on a small set of parameters, controlling the mutation probability and the population of different species. Our results indicate that for a set of parameter values, the phylogenetic classification produced by the used framework reproduces the actual evolutionary history with a very high average degree of accuracy. This includes parameter values where the species originated by the evolutionary dynamics have modular structures. In the more general context of community identification in complex networks, our model offers a simple setting for evaluating the effects, on the efficiency of community formation and identification, of the underlying dynamics generating the network itself. PMID:27176322

  14. Towards stable kinetics of large metabolic networks: Nonequilibrium potential function approach

    NASA Astrophysics Data System (ADS)

    Chen, Yong-Cong; Yuan, Ruo-Shi; Ao, Ping; Xu, Min-Juan; Zhu, Xiao-Mei

    2016-06-01

    While the biochemistry of metabolism in many organisms is well studied, details of the metabolic dynamics are not fully explored yet. Acquiring adequate in vivo kinetic parameters experimentally has always been an obstacle. Unless the parameters of a vast number of enzyme-catalyzed reactions happened to fall into very special ranges, a kinetic model for a large metabolic network would fail to reach a steady state. In this work we show that a stable metabolic network can be systematically established via a biologically motivated regulatory process. The regulation is constructed in terms of a potential landscape description of stochastic and nongradient systems. The constructed process draws enzymatic parameters towards stable metabolism by reducing the change in the Lyapunov function tied to the stochastic fluctuations. Biologically it can be viewed as interplay between the flux balance and the spread of workloads on the network. Our approach allows further constraints such as thermodynamics and optimal efficiency. We choose the central metabolism of Methylobacterium extorquens AM1 as a case study to demonstrate the effectiveness of the approach. Growth efficiency on carbon conversion rate versus cell viability and futile cycles is investigated in depth.

  15. Automatic tremor detection and waveform component analysis using a neural network approach

    NASA Astrophysics Data System (ADS)

    Horstmann, T.; Harrington, R. M.; Cochran, E. S.; Wang, T.; Potier, C. E.

    2010-12-01

    Recent studies over the last decade have established that non-volcanic tremor is a ubiquitous phenomenon commonly observed in subduction zones. In recent years, it has also been widely observed in strike-slip faulting environments. In particular, observations of tremor along the San Andreas Fault indicate that many of the events occur at depths ranging between 15 and 45 km, suggesting that tremor typically occurs in the zone where fault slip behaviour transitions between stick-slip and stable-sliding frictional regimes. As such, much of the tremor occurs at or below the depths of microseismicity, and therefore has the potential to provide clues about the slip behaviour of faults at depth. Despite several recent advances, the origin and characteristics of tremor along strike-slip faults are not well-resolved. The emergent phase arrivals, low amplitude waveforms, and variable event durations associated with non-volcanic tremor make automatic tremor event detection a non-trivial task. Recent approaches employ a cross-correlation technique which readily isolates individual template tremor bursts within tremor episodes. However the method tends to detect events with nearly identical waveforms and moveout across stations within an array. We employ a new method to identify tremor in large data volumes using an automated technique that does not require the use of a designated template event. Furthermore, the same method can be used to identify distinctive tremor waveform features, such as frequency content, polarity, and amplitude ratios. We use continuous broadband waveforms from 13 STS-2 seismometers deployed in May 2010 along the Cholame segment of the San Andreas Fault. The maximum station spacing within the array is approximately 25km. We first cross-correlate waveform envelopes to reduce the data volume and find isolated seismic events. Next, we use a neural network approach to cluster events in the reduced data set. Because the unsupervised neural network algorithm

  16. Self organising hypothesis networks: a new approach for representing and structuring SAR knowledge

    PubMed Central

    2014-01-01

    Background Combining different sources of knowledge to build improved structure activity relationship models is not easy owing to the variety of knowledge formats and the absence of a common framework to interoperate between learning techniques. Most of the current approaches address this problem by using consensus models that operate at the prediction level. We explore the possibility to directly combine these sources at the knowledge level, with the aim to harvest potentially increased synergy at an earlier stage. Our goal is to design a general methodology to facilitate knowledge discovery and produce accurate and interpretable models. Results To combine models at the knowledge level, we propose to decouple the learning phase from the knowledge application phase using a pivot representation (lingua franca) based on the concept of hypothesis. A hypothesis is a simple and interpretable knowledge unit. Regardless of its origin, knowledge is broken down into a collection of hypotheses. These hypotheses are subsequently organised into hierarchical network. This unification permits to combine different sources of knowledge into a common formalised framework. The approach allows us to create a synergistic system between different forms of knowledge and new algorithms can be applied to leverage this unified model. This first article focuses on the general principle of the Self Organising Hypothesis Network (SOHN) approach in the context of binary classification problems along with an illustrative application to the prediction of mutagenicity. Conclusion It is possible to represent knowledge in the unified form of a hypothesis network allowing interpretable predictions with performances comparable to mainstream machine learning techniques. This new approach offers the potential to combine knowledge from different sources into a common framework in which high level reasoning and meta-learning can be applied; these latter perspectives will be explored in future work. PMID

  17. A novel approach to synchronization of nonlinearly coupled network systems with delays

    NASA Astrophysics Data System (ADS)

    Tseng, Jui-Pin

    2016-06-01

    In this investigation, a novel approach to establishing the global synchronization of coupled network systems is presented. Under this approach, individual subsystems can be non-autonomous, and the coupling configuration is rather general. The coupling terms can be non-diffusive, nonlinear, time-dependent, asymmetric, and with time delays. With an iteration scheme, the problem of synchronization is transformed into solving a corresponding linear system of algebraic equations. Subsequently, delay-dependent and delay-independent criteria for global synchronization can be established. We implement the present approach to analyze synchronization of the FitzHugh-Nagumo systems under delayed and nonlinear sigmoidal coupling. Two examples are presented to demonstrate new dynamical scenarios, where oscillatory behavior and multistability emerge or are suppressed as the coupled neurons synchronize under the synchronization criterion. In addition, asynchrony induced by the coupling strength or coupling delay occurs while the synchronization criterion is violated.

  18. An analytical approach to photonic reservoir computing - a network of SOA's - for noisy speech recognition

    NASA Astrophysics Data System (ADS)

    Salehi, Mohammad Reza; Abiri, Ebrahim; Dehyadegari, Louiza

    2013-10-01

    This paper seeks to investigate an approach of photonic reservoir computing for optical speech recognition on an examination isolated digit recognition task. An analytical approach in photonic reservoir computing is further drawn on to decrease time consumption, compared to numerical methods; which is very important in processing large signals such as speech recognition. It is also observed that adjusting reservoir parameters along with a good nonlinear mapping of the input signal into the reservoir, analytical approach, would boost recognition accuracy performance. Perfect recognition accuracy (i.e. 100%) can be achieved for noiseless speech signals. For noisy signals with 0-10 db of signal to noise ratios, however, the accuracy ranges observed varied between 92% and 98%. In fact, photonic reservoir application demonstrated 9-18% improvement compared to classical reservoir networks with hyperbolic tangent nodes.

  19. NASA Water-Cycle Solutions Networks and Community of Practice Approaches to enhance Decision-making

    NASA Astrophysics Data System (ADS)

    Pozzi, W.; Ward, J.; Cox, E. L.; Lawford, R. G.; Matthews, D.; Houser, P.; Doherty, M.

    2009-12-01

    The Japanese Aerospace Exploration Agency (JAXA) has created the Asian Water Cycle Initiative regional network for South Asia and NASA has launched two networks to enhance the rapid transitioning of scientific achievements and NASA technology into operational use. All three networks meet a new type of scientific challenge by providing strong linkage among the scientific communities, the space agencies, and decision makers. We focus here on the two NASA-sponsored networks that carry out complementary approaches: WaterNet focused on large-scale national/international collaborations; North Olympic Peninsula Solution Network developed a local proof of concept project first, then began integration and collaboration at progressively larger scales, culminating with a national-level discourse via the National Association of Resource, Conservation and Development councils (NARC&DC). The ultimate goals of both groups were to bring NASA Science and Technology products to organizations/groups to improve decision making and to create collaborations and networks that would extend beyond the parent groups and expand and continue to be sustainable, after the original projects were completed. This paper provides a summary of lessons learned. The primary objective of the NOPSN is to bring NASA science and technology tools to watershed managers to improve the scientific basis of decision making in NASA national application areas of water management, agricultural efficiency, and ecological forecasting. To achieve this objective, the NOPSN team first developed and implemented a local proof-of-concept project for the Dungeness River, Washington, to improve water forecasting. The team then developed local and regional collaborations with water resource managers, stakeholder groups, and local, state, and federal agencies to identify environmental issues, challenges, and needs that could be addressed with NASA technology. Finally,through its partnership with NARC&D, it provided the NOPSN

  20. Object-oriented Approach to High-level Network Monitoring and Management

    NASA Technical Reports Server (NTRS)

    Mukkamala, Ravi

    2000-01-01

    An absolute prerequisite for the management of large investigating methods to build high-level monitoring computer networks is the ability to measure their systems that are built on top of existing monitoring performance. Unless we monitor a system, we cannot tools. Due to the heterogeneous nature of the hope to manage and control its performance. In this underlying systems at NASA Langley Research Center, paper, we describe a network monitoring system that we use an object-oriented approach for the design, we are currently designing and implementing. Keeping, first, we use UML (Unified Modeling Language) to in mind the complexity of the task and the required model users' requirements. Second, we identify the flexibility for future changes, we use an object-oriented existing capabilities of the underlying monitoring design methodology. The system is built using the system. Third, we try to map the former with the latter. APIs offered by the HP OpenView system.

  1. "Improved Geometric Network Model" (IGNM): a novel approach for deriving Connectivity Graphs for Indoor Navigation

    NASA Astrophysics Data System (ADS)

    Mortari, F.; Zlatanova, S.; Liu, L.; Clementini, E.

    2014-04-01

    Over the past few years Personal Navigation Systems have become an established tool for route planning, but they are mainly designed for outdoor environments. Indoor navigation is still a challenging research area for several reasons: positioning is not very accurate, users can freely move between the interior boundaries of buildings, path network construction process may not be easy and straightforward due to complexity of indoor space configurations. Therefore the creation of a good network is essential for deriving overall connectivity of a building and for representing position of objects within the environment. This paper reviews current approaches to automatic derivation of route graphs for indoor navigation and discusses some of their limitations. Then, it introduces a novel algorithmic strategy for extracting a 3D connectivity graph for indoor navigation based on 2D floor plans.

  2. What are the Evolutionary Origins of Mitochondria? A Complex Network Approach

    PubMed Central

    Carvalho, Daniel S.; Andrade, Roberto F. S.; Pinho, Suani T. R.; Góes-Neto, Aristóteles; Lobão, Thierry C. P.; Bomfim, Gilberto C.; El-Hani, Charbel N.

    2015-01-01

    Mitochondria originated endosymbiotically from an Alphaproteobacteria-like ancestor. However, it is still uncertain which extant group of Alphaproteobacteria is phylogenetically closer to the mitochondrial ancestor. The proposed groups comprise the order Rickettsiales, the family Rhodospirillaceae, and the genus Rickettsia. In this study, we apply a new complex network approach to investigate the evolutionary origins of mitochondria, analyzing protein sequences modules in a critical network obtained through a critical similarity threshold between the studied sequences. The dataset included three ATP synthase subunits (4, 6, and 9) and its alphaproteobacterial homologs (b, a, and c). In all the subunits, the results gave no support to the hypothesis that Rickettsiales are closely related to the mitochondrial ancestor. Our findings support the hypothesis that mitochondria share a common ancestor with a clade containing all Alphaproteobacteria orders, except Rickettsiales. PMID:26332127

  3. A Novel Wearable Sensor-Based Human Activity Recognition Approach Using Artificial Hydrocarbon Networks.

    PubMed

    Ponce, Hiram; Martínez-Villaseñor, María de Lourdes; Miralles-Pechuán, Luis

    2016-07-05

    Human activity recognition has gained more interest in several research communities given that understanding user activities and behavior helps to deliver proactive and personalized services. There are many examples of health systems improved by human activity recognition. Nevertheless, the human activity recognition classification process is not an easy task. Different types of noise in wearable sensors data frequently hamper the human activity recognition classification process. In order to develop a successful activity recognition system, it is necessary to use stable and robust machine learning techniques capable of dealing with noisy data. In this paper, we presented the artificial hydrocarbon networks (AHN) technique to the human activity recognition community. Our artificial hydrocarbon networks novel approach is suitable for physical activity recognition, noise tolerance of corrupted data sensors and robust in terms of different issues on data sensors. We proved that the AHN classifier is very competitive for physical activity recognition and is very robust in comparison with other well-known machine learning methods.

  4. A jazz-based approach for optimal setting of pressure reducing valves in water distribution networks

    NASA Astrophysics Data System (ADS)

    De Paola, Francesco; Galdiero, Enzo; Giugni, Maurizio

    2016-05-01

    This study presents a model for valve setting in water distribution networks (WDNs), with the aim of reducing the level of leakage. The approach is based on the harmony search (HS) optimization algorithm. The HS mimics a jazz improvisation process able to find the best solutions, in this case corresponding to valve settings in a WDN. The model also interfaces with the improved version of a popular hydraulic simulator, EPANET 2.0, to check the hydraulic constraints and to evaluate the performances of the solutions. Penalties are introduced in the objective function in case of violation of the hydraulic constraints. The model is applied to two case studies, and the obtained results in terms of pressure reductions are comparable with those of competitive metaheuristic algorithms (e.g. genetic algorithms). The results demonstrate the suitability of the HS algorithm for water network management and optimization.

  5. On the Interplay between the Evolvability and Network Robustness in an Evolutionary Biological Network: A Systems Biology Approach

    PubMed Central

    Chen, Bor-Sen; Lin, Ying-Po

    2011-01-01

    In the evolutionary process, the random transmission and mutation of genes provide biological diversities for natural selection. In order to preserve functional phenotypes between generations, gene networks need to evolve robustly under the influence of random perturbations. Therefore, the robustness of the phenotype, in the evolutionary process, exerts a selection force on gene networks to keep network functions. However, gene networks need to adjust, by variations in genetic content, to generate phenotypes for new challenges in the network’s evolution, ie, the evolvability. Hence, there should be some interplay between the evolvability and network robustness in evolutionary gene networks. In this study, the interplay between the evolvability and network robustness of a gene network and a biochemical network is discussed from a nonlinear stochastic system point of view. It was found that if the genetic robustness plus environmental robustness is less than the network robustness, the phenotype of the biological network is robust in evolution. The tradeoff between the genetic robustness and environmental robustness in evolution is discussed from the stochastic stability robustness and sensitivity of the nonlinear stochastic biological network, which may be relevant to the statistical tradeoff between bias and variance, the so-called bias/variance dilemma. Further, the tradeoff could be considered as an antagonistic pleiotropic action of a gene network and discussed from the systems biology perspective. PMID:22084563

  6. A Composite Network Approach for Assessing Multi-Species Connectivity: An Application to Road Defragmentation Prioritisation

    PubMed Central

    Saura, Santiago; Rondinini, Carlo

    2016-01-01

    One of the biggest challenges in large-scale conservation is quantifying connectivity at broad geographic scales and for a large set of species. Because connectivity analyses can be computationally intensive, and the planning process quite complex when multiple taxa are involved, assessing connectivity at large spatial extents for many species turns to be often intractable. Such limitation results in that conducted assessments are often partial by focusing on a few key species only, or are generic by considering a range of dispersal distances and a fixed set of areas to connect that are not directly linked to the actual spatial distribution or mobility of particular species. By using a graph theory framework, here we propose an approach to reduce computational effort and effectively consider large assemblages of species in obtaining multi-species connectivity priorities. We demonstrate the potential of the approach by identifying defragmentation priorities in the Italian road network focusing on medium and large terrestrial mammals. We show that by combining probabilistic species graphs prior to conducting the network analysis (i) it is possible to analyse connectivity once for all species simultaneously, obtaining conservation or restoration priorities that apply for the entire species assemblage; and that (ii) those priorities are well aligned with the ones that would be obtained by aggregating the results of separate connectivity analysis for each of the individual species. This approach offers great opportunities to extend connectivity assessments to large assemblages of species and broad geographic scales. PMID:27768718

  7. An unbiased Bayesian approach to functional connectomics implicates social-communication networks in autism.

    PubMed

    Venkataraman, Archana; Duncan, James S; Yang, Daniel Y-J; Pelphrey, Kevin A

    2015-01-01

    Resting-state functional magnetic resonance imaging (rsfMRI) studies reveal a complex pattern of hyper- and hypo-connectivity in children with autism spectrum disorder (ASD). Whereas rsfMRI findings tend to implicate the default mode network and subcortical areas in ASD, task fMRI and behavioral experiments point to social dysfunction as a unifying impairment of the disorder. Here, we leverage a novel Bayesian framework for whole-brain functional connectomics that aggregates population differences in connectivity to localize a subset of foci that are most affected by ASD. Our approach is entirely data-driven and does not impose spatial constraints on the region foci or dictate the trajectory of altered functional pathways. We apply our method to data from the openly shared Autism Brain Imaging Data Exchange (ABIDE) and pinpoint two intrinsic functional networks that distinguish ASD patients from typically developing controls. One network involves foci in the right temporal pole, left posterior cingulate cortex, left supramarginal gyrus, and left middle temporal gyrus. Automated decoding of this network by the Neurosynth meta-analytic database suggests high-level concepts of "language" and "comprehension" as the likely functional correlates. The second network consists of the left banks of the superior temporal sulcus, right posterior superior temporal sulcus extending into temporo-parietal junction, and right middle temporal gyrus. Associated functionality of these regions includes "social" and "person". The abnormal pathways emanating from the above foci indicate that ASD patients simultaneously exhibit reduced long-range or inter-hemispheric connectivity and increased short-range or intra-hemispheric connectivity. Our findings reveal new insights into ASD and highlight possible neural mechanisms of the disorder.

  8. Identification of the anti-tumor activity and mechanisms of nuciferine through a network pharmacology approach

    PubMed Central

    Qi, Quan; Li, Rui; Li, Hui-ying; Cao, Yu-bing; Bai, Ming; Fan, Xiao-jing; Wang, Shu-yan; Zhang, Bo; Li, Shao

    2016-01-01

    Aim: Nuciferine is an aporphine alkaloid extracted from lotus leaves, which is a raw material in Chinese medicinal herb for weight loss. In this study we used a network pharmacology approach to identify the anti-tumor activity of nuciferine and the underlying mechanisms. Methods: The pharmacological activities and mechanisms of nuciferine were identified through target profile prediction, clustering analysis and functional enrichment analysis using our traditional Chinese medicine (TCM) network pharmacology platform. The anti-tumor activity of nuciferine was validated by in vitro and in vivo experiments. The anti-tumor mechanisms of nuciferine were predicted through network target analysis and verified by in vitro experiments. Results: The nuciferine target profile was enriched with signaling pathways and biological functions, including “regulation of lipase activity”, “response to nicotine” and “regulation of cell proliferation”. Target profile clustering results suggested that nuciferine to exert anti-tumor effect. In experimental validation, nuciferine (0.8 mg/mL) markedly inhibited the viability of human neuroblastoma SY5Y cells and mouse colorectal cancer CT26 cells in vitro, and nuciferine (0.05 mg/mL) significantly suppressed the invasion of 6 cancer cell lines in vitro. Intraperitoneal injection of nuciferine (9.5 mg/mL, ip, 3 times a week for 3 weeks) significantly decreased the weight of SY5Y and CT26 tumor xenografts in nude mice. Network target analysis and experimental validation in SY5Y and CT26 cells showed that the anti-tumor effect of nuciferine was mediated through inhibiting the PI3K-AKT signaling pathway and IL-1 levels in SY5Y and CT26 cells. Conclusion: By using a TCM network pharmacology method, nuciferine is identified as an anti-tumor agent against human neuroblastoma and mouse colorectal cancer in vitro and in vivo, through inhibiting the PI3K-AKT signaling pathways and IL-1 levels. PMID:27180984

  9. Ion track based tunable device as humidity sensor: a neural network approach

    NASA Astrophysics Data System (ADS)

    Sharma, Mamta; Sharma, Anuradha; Bhattacherjee, Vandana

    2013-01-01

    Artificial Neural Network (ANN) has been applied in statistical model development, adaptive control system, pattern recognition in data mining, and decision making under uncertainty. The nonlinear dependence of any sensor output on the input physical variable has been the motivation for many researchers to attempt unconventional modeling techniques such as neural networks and other machine learning approaches. Artificial neural network (ANN) is a computational tool inspired by the network of neurons in biological nervous system. It is a network consisting of arrays of artificial neurons linked together with different weights of connection. The states of the neurons as well as the weights of connections among them evolve according to certain learning rules.. In the present work we focus on the category of sensors which respond to electrical property changes such as impedance or capacitance. Recently, sensor materials have been embedded in etched tracks due to their nanometric dimensions and high aspect ratio which give high surface area available for exposure to sensing material. Various materials can be used for this purpose to probe physical (light intensity, temperature etc.), chemical (humidity, ammonia gas, alcohol etc.) or biological (germs, hormones etc.) parameters. The present work involves the application of TEMPOS structures as humidity sensors. The sample to be studied was prepared using the polymer electrolyte (PEO/NH4ClO4) with CdS nano-particles dispersed in the polymer electrolyte. In the present research we have attempted to correlate the combined effects of voltage and frequency on impedance of humidity sensors using a neural network model and results have indicated that the mean absolute error of the ANN Model for the training data was 3.95% while for the validation data it was 4.65%. The corresponding values for the LR model were 8.28% and 8.35% respectively. It was also demonstrated the percentage improvement of the ANN Model with respect to the

  10. Queueing Network Models for Parallel Processing of Task Systems: an Operational Approach

    NASA Technical Reports Server (NTRS)

    Mak, Victor W. K.

    1986-01-01

    Computer performance modeling of possibly complex computations running on highly concurrent systems is considered. Earlier works in this area either dealt with a very simple program structure or resulted in methods with exponential complexity. An efficient procedure is developed to compute the performance measures for series-parallel-reducible task systems using queueing network models. The procedure is based on the concept of hierarchical decomposition and a new operational approach. Numerical results for three test cases are presented and compared to those of simulations.

  11. Propagation of computer virus both across the Internet and external computers: A complex-network approach

    NASA Astrophysics Data System (ADS)

    Gan, Chenquan; Yang, Xiaofan; Liu, Wanping; Zhu, Qingyi; Jin, Jian; He, Li

    2014-08-01

    Based on the assumption that external computers (particularly, infected external computers) are connected to the Internet, and by considering the influence of the Internet topology on computer virus spreading, this paper establishes a novel computer virus propagation model with a complex-network approach. This model possesses a unique (viral) equilibrium which is globally attractive. Some numerical simulations are also given to illustrate this result. Further study shows that the computers with higher node degrees are more susceptible to infection than those with lower node degrees. In this regard, some appropriate protective measures are suggested.

  12. SIGNATURES OF ILLICIT NUCLEAR PROCUREMENT NETWORKS: AN OVERVIEW OF PRELIMINARY APPROACHES AND RESULTS

    SciTech Connect

    Webster, Jennifer B.; Erikson, Luke E.; Gastelum, Zoe N.; Lewis, Valerie A.; Best, Daniel M.; Hogan, Emilie A.; Chikkagoudar, Satish

    2014-05-12

    The illicit trafficking of strategic nuclear commodities (defined here as the goods needed for a covert nuclear program excluding special nuclear materials) poses a significant challenge to the international nuclear nonproliferation community. Export control regulations, both domestically and internationally, seek to inhibit the spread of strategic nuclear commodities by restricting their sale to parties that may use them for nefarious purposes. However, export controls alone are not sufficient for preventing the illicit transfer of strategic nuclear goods. There are two major pitfalls to relying solely on export control regulations for the deterrence of proliferation of strategic goods. First, export control enforcement today relies heavily on the honesty and willingness of participants to adhere to the legal framework already in place. Secondly, current practices focus on the evaluation of single records which allow for the necessary goods to be purchased separately and hidden within the thousands of legitimate commerce transactions that occur each day, disregarding strategic information regarding several purchases. Our research presents two preliminary data-centric approaches for investigating procurement networks of strategic nuclear commodities. Pacific Northwest National Laboratory (PNNL) has been putting significant effort into nonproliferation activities as an institution, both in terms of the classical nuclear material focused approach and in the examination of other strategic goods necessary to implement a nuclear program. In particular, the PNNL Signature Discovery Initiative (SDI) has codified several scientific methodologies for the detection, characterization, and prediction of signatures that are indicative of a phenomenon of interest. The methodologies and tools developed under SDI have already been applied successfully to problems in bio-forensics, cyber security and power grid balancing efforts and they have now made the nonproliferation of

  13. Path-finding through flexible hierarchical road networks: An experiential approach using taxi trajectory data

    NASA Astrophysics Data System (ADS)

    Li, Qingquan; Zeng, Zhe; Zhang, Tong; Li, Jonathan; Wu, Zhongheng

    2011-02-01

    Optimal paths computed by conventional path-planning algorithms are usually not "optimal" since realistic traffic information and local road network characteristics are not considered. We present a new experiential approach that computes optimal paths based on the experience of taxi drivers by mining a huge number of floating car trajectories. The approach consists of three steps. First, routes are recovered from original taxi trajectories. Second, an experiential road hierarchy is constructed using travel frequency and speed information for road segments. Third, experiential optimal paths are planned based on the experiential road hierarchy. Compared with conventional path-planning methods, the proposed method provides better experiential optimal path identification. Experiments demonstrate that the travel time is less for these experiential paths than for paths planned by conventional methods. Results obtained for a case study in the city of Wuhan, China, demonstrate that experiential optimal paths can be flexibly obtained in different time intervals, particularly during peak hours.

  14. New approach for earthquake/tsunami monitoring using dense GPS networks.

    PubMed

    Li, Xingxing; Ge, Maorong; Zhang, Yong; Wang, Rongjiang; Xu, Peiliang; Wickert, Jens; Schuh, Harald

    2013-01-01

    In recent times increasing numbers of high-rate GPS stations have been installed around the world and set-up to provide data in real-time. These networks provide a great opportunity to quickly capture surface displacements, which makes them important as potential constituents of earthquake/tsunami monitoring and warning systems. The appropriate GPS real-time data analysis with sufficient accuracy for this purpose is a main focus of the current GPS research. In this paper we propose an augmented point positioning method for GPS based hazard monitoring, which can achieve fast or even instantaneous precise positioning without relying on data of a specific reference station. The proposed method overcomes the limitations of the currently mostly used GPS processing approaches of relative positioning and global precise point positioning. The advantages of the proposed approach are demonstrated by using GPS data, which was recorded during the 2011 Tohoku-Oki earthquake in Japan.

  15. The antiferromagnetic cross-coupled spin ladder: Quantum fidelity and tensor networks approach

    NASA Astrophysics Data System (ADS)

    Chen, Xi-Hao; Cho, Sam Young; Zhou, Huan-Qiang; Batchelor, Murray T.

    2016-05-01

    We investigate the phase diagram of the cross-coupled Heisenberg spin ladder with antiferromagnetic couplings. For this model, the results for the existence of the columnar dimer phase, which was predicted on the basis of weak coupling field theory renormalization group arguments, have been conflicting. The numerical work on this model has been based on various approaches, including exact diagonalization, series expansions and density-matrix renormalization group calculations. Using the recently-developed tensor network states and groundstate fidelity approach for quantum spin ladders, we find no evidence for the existence of the columnar dimer phase. We also provide an argument based on the symmetry of the Hamiltonian, which suggests that the phase diagram for antiferromagnetic couplings consists of a single line separating the rung-singlet and the Haldane phases.

  16. A hybrid calibration-free/artificial neural networks approach to the quantitative analysis of LIBS spectra

    NASA Astrophysics Data System (ADS)

    D'Andrea, Eleonora; Pagnotta, Stefano; Grifoni, Emanuela; Legnaioli, Stefano; Lorenzetti, Giulia; Palleschi, Vincenzo; Lazzerini, Beatrice

    2015-03-01

    A `hybrid' method is proposed for the quantitative analysis of materials by LIBS, combining the precision of the calibration-free LIBS (CF-LIBS) algorithm with the quickness of artificial neural networks. The method allows the precise determination of the samples' composition even in the presence of relatively large laser fluctuations and matrix effects. To show the strength and robustness of this approach, a number of synthetic LIBS spectra of Cu-Ni binary alloys with different composition were computer-simulated, in correspondence of different plasma temperatures, electron number densities and ablated mass. The CF-LIBS/ANN approach here proposed demonstrated to be capable, after appropriate training, of `learning' the basic physical relations between the experimentally measured line intensities and the plasma parameters. Because of that the composition of the sample can be correctly determined, as in CF-LIBS measurements, but in a much shorter time.

  17. Book Review: Water Diplomacy: A Negotiated Approach to Managing Complex Water Networks

    NASA Astrophysics Data System (ADS)

    Hossain, Faisal

    2013-01-01

    All nations have built their economies around water that is naturally available. Almost all sectors of the economy depend on water. Yet there is conflict among various users for the finite amount of water that is available. Managers and practitioners have long held the notion that competition rather than collaboration is the solution when there is conflict. Water Diplomacy: A Negotiated Approach to Managing Complex Water Networks, by Shafiqul Islam and Lawrence Susskind, provides a refreshingly compelling alternative to overcoming water conflicts. The book argues that the dynamic sociopolitical and socioeconomic constraints of water resources are best addressed in a "diplomacy" framework. The book rebuts, using several case studies, the technically rigid competition approach of today's water sharing practice.

  18. Finding the multipath propagation of multivariable crude oil prices using a wavelet-based network approach

    NASA Astrophysics Data System (ADS)

    Jia, Xiaoliang; An, Haizhong; Sun, Xiaoqi; Huang, Xuan; Gao, Xiangyun

    2016-04-01

    The globalization and regionalization of crude oil trade inevitably give rise to the difference of crude oil prices. The understanding of the pattern of the crude oil prices' mutual propagation is essential for analyzing the development of global oil trade. Previous research has focused mainly on the fuzzy long- or short-term one-to-one propagation of bivariate oil prices, generally ignoring various patterns of periodical multivariate propagation. This study presents a wavelet-based network approach to help uncover the multipath propagation of multivariable crude oil prices in a joint time-frequency period. The weekly oil spot prices of the OPEC member states from June 1999 to March 2011 are adopted as the sample data. First, we used wavelet analysis to find different subseries based on an optimal decomposing scale to describe the periodical feature of the original oil price time series. Second, a complex network model was constructed based on an optimal threshold selection to describe the structural feature of multivariable oil prices. Third, Bayesian network analysis (BNA) was conducted to find the probability causal relationship based on periodical structural features to describe the various patterns of periodical multivariable propagation. Finally, the significance of the leading and intermediary oil prices is discussed. These findings are beneficial for the implementation of periodical target-oriented pricing policies and investment strategies.

  19. A Machine Learning Approach to Automated Structural Network Analysis: Application to Neonatal Encephalopathy

    PubMed Central

    Ziv, Etay; Tymofiyeva, Olga; Ferriero, Donna M.; Barkovich, A. James; Hess, Chris P.; Xu, Duan

    2013-01-01

    Neonatal encephalopathy represents a heterogeneous group of conditions associated with life-long developmental disabilities and neurological deficits. Clinical measures and current anatomic brain imaging remain inadequate predictors of outcome in children with neonatal encephalopathy. Some studies have suggested that brain development and, therefore, brain connectivity may be altered in the subgroup of patients who subsequently go on to develop clinically significant neurological abnormalities. Large-scale structural brain connectivity networks constructed using diffusion tractography have been posited to reflect organizational differences in white matter architecture at the mesoscale, and thus offer a unique tool for characterizing brain development in patients with neonatal encephalopathy. In this manuscript we use diffusion tractography to construct structural networks for a cohort of patients with neonatal encephalopathy. We systematically map these networks to a high-dimensional space and then apply standard machine learning algorithms to predict neurological outcome in the cohort. Using nested cross-validation we demonstrate high prediction accuracy that is both statistically significant and robust over a broad range of thresholds. Our algorithm offers a novel tool to evaluate neonates at risk for developing neurological deficit. The described approach can be applied to any brain pathology that affects structural connectivity. PMID:24282501

  20. Neural network approach to continuous-time direct adaptive optimal control for partially unknown nonlinear systems.

    PubMed

    Vrabie, Draguna; Lewis, Frank

    2009-04-01

    In this paper we present in a continuous-time framework an online approach to direct adaptive optimal control with infinite horizon cost for nonlinear systems. The algorithm converges online to the optimal control solution without knowledge of the internal system dynamics. Closed-loop dynamic stability is guaranteed throughout. The algorithm is based on a reinforcement learning scheme, namely Policy Iterations, and makes use of neural networks, in an Actor/Critic structure, to parametrically represent the control policy and the performance of the control system. The two neural networks are trained to express the optimal controller and optimal cost function which describes the infinite horizon control performance. Convergence of the algorithm is proven under the realistic assumption that the two neural networks do not provide perfect representations for the nonlinear control and cost functions. The result is a hybrid control structure which involves a continuous-time controller and a supervisory adaptation structure which operates based on data sampled from the plant and from the continuous-time performance dynamics. Such control structure is unlike any standard form of controllers previously seen in the literature. Simulation results, obtained considering two second-order nonlinear systems, are provided.

  1. Network topology, Transport dynamics, and Vulnerability Analysis in River Deltas: A Graph-Theoretic Approach

    NASA Astrophysics Data System (ADS)

    Tejedor, A.; Foufoula-Georgiou, E.; Longjas, A.; Zaliapin, I. V.

    2014-12-01

    River deltas are intricate landscapes with complex channel networks that self-organize to deliver water, sediment, and nutrients from the apex to the delta top and eventually to the coastal zone. The natural balance of material and energy fluxes which maintains a stable hydrologic, geomorphologic, and ecological state of a river delta, is often disrupted by external factors causing topological and dynamical changes in the delta structure and function. A formal quantitative framework for studying river delta topology and transport dynamics and their response to change is lacking. Here we present such a framework based on spectral graph theory and demonstrate its value in quantifying the complexity of the delta network topology, computing its steady state fluxes, and identifying upstream (contributing) and downstream (nourishment) areas from any point in the network. We use this framework to construct vulnerability maps that quantify the relative change of sediment and water delivery to the shoreline outlets in response to possible perturbations in hundreds of upstream links. This enables us to evaluate which links (hotspots) and what management scenarios would most influence flux delivery to the outlets, paving the way of systematically examining how local or spatially distributed delta interventions can be studied within a systems approach for delta sustainability.

  2. Research and collaboration overview of Institut Pasteur International Network: a bibliometric approach toward research funding decisions

    PubMed Central

    Mostafavi, Ehsan; Bazrafshan, Azam

    2014-01-01

    Background: Institut Pasteur International Network (IPIN), which includes 32 research institutes around the world, is a network of research and expertise to fight against infectious diseases. A scientometric approach was applied to describe research and collaboration activities of IPIN. Methods: Publications were identified using a manual search of IPIN member addresses in Science Citation Index Expanded (SCIE) between 2006 and 2011. Total publications were then subcategorized by geographic regions. Several scientometric indicators and the H-index were employed to estimate the scientific production of each IPIN member. Subject and geographical overlay maps were also applied to visualize the network activities of the IPIN members. Results: A total number of 12667 publications originated from IPIN members. Each author produced an average number of 2.18 papers and each publication received an average of 13.40 citations. European Pasteur Institutes had the largest amount of publications, authored papers, and H-index values. Biochemistry and molecular biology, microbiology, immunology and infectious diseases were the most important research topics, respectively. Geographic mapping of IPIN publications showed wide international collaboration among IPIN members around the world. Conclusion: IPIN has strong ties with national and international authorities and organizations to investigate the current and future health issues. It is recommended to use scientometric and collaboration indicators as measures of research performance in IPIN future policies and investment decisions. PMID:24596896

  3. A restricted branch and bound approach for setting the left turn phase sequences in signalized networks

    SciTech Connect

    Pillai, R.S.; Rathi, A.K.; Cohen, S.

    1994-07-01

    The main objective of synchronized signal timing is to keep traffic moving along arterial in platoons throughout the signal system by proper setting of left turn phase sequence at signals along the arterials/networks. The synchronization of traffic signals located along the urban/suburban arterials in metropolitan areas is perhaps one of the most cost-effective method for improving traffic flow along these streets. The popular technique for solving this problem formulates it as a mixed integer linear program and used Land and Powell branch and bound search to arrive at the optimal solution. The computation time tends to be excessive for realistic multiarterial network problems due to the exhaustive nature of the branch and bound search technique. Furthermore, the Land and Powell branch and bound code is known to be numerically unstable, which results in suboptimal solutions for network problems with a range on the cycle time variable. This paper presents the development of a fast and numerically stable heuristic, developed using MINOS linear programming solver. The new heuristic can generate optimal/near-optimal solutions in a fraction of the time needed to compute the optimal solution by Land and Powell code. The solution technique is based on restricted search using branch and bound technique. The efficiency of the heuristic approach is demonstrated by numerical results for a set of test problems.

  4. Neural network approach to continuous-time direct adaptive optimal control for partially unknown nonlinear systems.

    PubMed

    Vrabie, Draguna; Lewis, Frank

    2009-04-01

    In this paper we present in a continuous-time framework an online approach to direct adaptive optimal control with infinite horizon cost for nonlinear systems. The algorithm converges online to the optimal control solution without knowledge of the internal system dynamics. Closed-loop dynamic stability is guaranteed throughout. The algorithm is based on a reinforcement learning scheme, namely Policy Iterations, and makes use of neural networks, in an Actor/Critic structure, to parametrically represent the control policy and the performance of the control system. The two neural networks are trained to express the optimal controller and optimal cost function which describes the infinite horizon control performance. Convergence of the algorithm is proven under the realistic assumption that the two neural networks do not provide perfect representations for the nonlinear control and cost functions. The result is a hybrid control structure which involves a continuous-time controller and a supervisory adaptation structure which operates based on data sampled from the plant and from the continuous-time performance dynamics. Such control structure is unlike any standard form of controllers previously seen in the literature. Simulation results, obtained considering two second-order nonlinear systems, are provided. PMID:19362449

  5. Systematic Analysis of the Multiple Bioactivities of Green Tea through a Network Pharmacology Approach

    PubMed Central

    Zhang, Shoude; Shan, Lei; Li, Qiao; Wang, Xia; Li, Shiliang; Zhang, Yuan; Fu, Jianjun; Liu, Xiaofeng; Li, Honglin; Zhang, Weidong

    2014-01-01

    During the past decades, a number of studies have demonstrated multiple beneficial health effects of green tea. Polyphenolics are the most biologically active components of green tea. Many targets can be targeted or affected by polyphenolics. In this study, we excavated all of the targets of green tea polyphenolics (GTPs) though literature mining and target calculation and analyzed the multiple pharmacology actions of green tea comprehensively through a network pharmacology approach. In the end, a total of 200 Homo sapiens targets were identified for fifteen GTPs. These targets were classified into six groups according to their related disease, which included cancer, diabetes, neurodegenerative disease, cardiovascular disease, muscular disease, and inflammation. Moreover, these targets mapped into 143 KEGG pathways, 26 of which were more enriched, as determined though pathway enrichment analysis and target-pathway network analysis. Among the identified pathways, 20 pathways were selected for analyzing the mechanisms of green tea in these diseases. Overall, this study systematically illustrated the mechanisms of the pleiotropic activity of green tea by analyzing the corresponding “drug-target-pathway-disease” interaction network. PMID:25525446

  6. A new approach for combining knowledge from multiple coexpression networks of microRNAs.

    PubMed

    Bhattacharyya, Malay; Das, Manali; Bandyopadhyay, Sanghamitra

    2013-08-01

    MicroRNAs (miRNAs) are a class of small noncoding RNAs that are known to have critical functions across various biological processes. Simultaneous activities of multiple miRNAs can be monitored from their expression profiles under various conditions. We often build up coexpression networks from such profiles. Unfortunately, due to the change of experimental setups (or conditions), the expression profiles do change, and consequently, the patterns of the coexpression networks vary. To obtain a robust functional relationship between miRNAs, by integrating different coexpression networks in a systems biology approach, we have to combine them properly. Here, we evaluate the state-of-the-art techniques and propose a novel integrative measure, and a corresponding methodology, that might be useful for identifying the dependence between coexpression and functional similarity. We establish the results by evaluating the expression profiles of miRNAs taken from bone marrow samples of patients with leukemia. The findings highlight the potential of the integrative algorithm in analyzing the expression profiles of miRNAs for further study.

  7. A Network Model and Computational Approach for the Mo-99 Supply Chain for Nuclear Medicine

    NASA Astrophysics Data System (ADS)

    Nagurney, Ladimer; Nagurney, Anna

    2011-11-01

    Technetium-99m, produced from the decay of Molybdenum-99, is the most commonly used radioisotope for medical imaging, specifically in cardiac and cancer diagnostics. The MO-99 is produced in a small number of reactors and is processed and distributed worldwide. We have developed a tractable network model and computational approach for the design and redesign of the MO-99 supply chains. This topic is of special relevance to medical physics given the product's widespread use and the aging of the nuclear reactors where it is produced. This generalized network model, for which we derived formulae for the arc and path multipliers that capture the underlying physics of radioisotope decay, includes total operational cost minimization, and the minimization of cost associated with nuclear waste disposal, coupled with capacity investment (or disinvestment) costs. Its solution yields the optimal link capacities as well as the optimal MO-99 flows so that demand at the medical facilities is satisfied. We illustrate the framework with a Western Hemisphere case study. The framework provides the foundation for further empirical research and the basis for the modeling and analysis of supply chain networks for other very time-sensitive medical products.

  8. Global asymptotic stability analysis for delayed neural networks using a matrix-based quadratic convex approach.

    PubMed

    Zhang, Xian-Ming; Han, Qing-Long

    2014-06-01

    This paper is concerned with global asymptotic stability for a class of generalized neural networks with interval time-varying delays by constructing a new Lyapunov-Krasovskii functional which includes some integral terms in the form of ∫(t-h)(t)(h-t-s)(j)ẋ(T)(s)Rjẋ(s)ds(j=1,2,3). Some useful integral inequalities are established for the derivatives of those integral terms introduced in the Lyapunov-Krasovskii functional. A matrix-based quadratic convex approach is introduced to prove not only the negative definiteness of the derivative of the Lyapunov-Krasovskii functional, but also the positive definiteness of the Lyapunov-Krasovskii functional. Some novel stability criteria are formulated in two cases, respectively, where the time-varying delay is continuous uniformly bounded and where the time-varying delay is differentiable uniformly bounded with its time-derivative bounded by constant lower and upper bounds. These criteria are applicable to both static neural networks and local field neural networks. The effectiveness of the proposed method is demonstrated by two numerical examples.

  9. Examining Food Risk in the Large using a Complex, Networked System-of-sytems Approach

    SciTech Connect

    Ambrosiano, John; Newkirk, Ryan; Mc Donald, Mark P

    2010-12-03

    The food production infrastructure is a highly complex system of systems. Characterizing the risks of intentional contamination in multi-ingredient manufactured foods is extremely challenging because the risks depend on the vulnerabilities of food processing facilities and on the intricacies of the supply-distribution networks that link them. A pure engineering approach to modeling the system is impractical because of the overall system complexity and paucity of data. A methodology is needed to assess food contamination risk 'in the large', based on current, high-level information about manufacturing facilities, corrunodities and markets, that will indicate which food categories are most at risk of intentional contamination and warrant deeper analysis. The approach begins by decomposing the system for producing a multi-ingredient food into instances of two subsystem archetypes: (1) the relevant manufacturing and processing facilities, and (2) the networked corrunodity flows that link them to each other and consumers. Ingredient manufacturing subsystems are modeled as generic systems dynamics models with distributions of key parameters that span the configurations of real facilities. Networks representing the distribution systems are synthesized from general information about food corrunodities. This is done in a series of steps. First, probability networks representing the aggregated flows of food from manufacturers to wholesalers, retailers, other manufacturers, and direct consumers are inferred from high-level approximate information. This is followed by disaggregation of the general flows into flows connecting 'large' and 'small' categories of manufacturers, wholesalers, retailers, and consumers. Optimization methods are then used to determine the most likely network flows consistent with given data. Vulnerability can be assessed for a potential contamination point using a modified CARVER + Shock model. Once the facility and corrunodity flow models are

  10. A fast approach to global alignment of protein-protein interaction networks

    PubMed Central

    2013-01-01

    Background Global network alignment has been proposed as an effective tool for computing functional orthology. Commonly used global alignment techniques such as IsoRank rely on a two-step process: the first step is an iterative diffusion-based approach for assigning similarity scores to all possible node pairs (matchings); the second step applies a maximum-weight bipartite matching algorithm to this similarity score matrix to identify orthologous node pairs. While demonstrably successful in identifying orthologies beyond those based on sequences, this two-step process is computationally expensive. Recent work on computation of node-pair similarity matrices has demonstrated that the computational cost of the first step can be significantly reduced. The use of these accelerated methods renders the bipartite matching step as the dominant computational cost. This motivates a critical assessment of the tradeoffs of computational cost and solution quality (matching quality, topological matches, and biological significance) associated with the bipartite matching step. In this paper we utilize the state-of-the-art core diffusion-based step in IsoRank for similarity matrix computation, and couple it with two heuristic bipartite matching algorithms – a matrix-based greedy approach, and a tunable, adaptive, auction-based matching algorithm developed by us. We then compare our implementations against the performance and quality characteristics of the solution produced by the reference IsoRank binary, which also implements an optimal matching algorithm. Results Using heuristic matching algorithms in the IsoRank pipeline exhibits dramatic speedup improvements; typically ×30 times faster for the total alignment process in most cases of interest. More surprisingly, these improvements in compute times are typically accompanied by better or comparable topological and biological quality for the network alignments generated. These measures are quantified by the number of conserved

  11. Message-passing approach for recurrent-state epidemic models on networks

    NASA Astrophysics Data System (ADS)

    Shrestha, Munik; Scarpino, Samuel V.; Moore, Cristopher

    2015-08-01

    Epidemic processes are common out-of-equilibrium phenomena of broad interdisciplinary interest. Recently, dynamic message-passing (DMP) has been proposed as an efficient algorithm for simulating epidemic models on networks, and in particular for estimating the probability that a given node will become infectious at a particular time. To date, DMP has been applied exclusively to models with one-way state changes, as opposed to models like SIS and SIRS where nodes can return to previously inhabited states. Because many real-world epidemics can exhibit such recurrent dynamics, we propose a DMP algorithm for complex, recurrent epidemic models on networks. Our approach takes correlations between neighboring nodes into account while preventing causal signals from backtracking to their immediate source, and thus avoids "echo chamber effects" where a pair of adjacent nodes each amplify the probability that the other is infectious. We demonstrate that this approach well approximates results obtained from Monte Carlo simulation and that its accuracy is often superior to the pair approximation (which also takes second-order correlations into account). Moreover, our approach is more computationally efficient than the pair approximation, especially for complex epidemic models: the number of variables in our DMP approach grows as 2 m k where m is the number of edges and k is the number of states, as opposed to m k2 for the pair approximation. We suspect that the resulting reduction in computational effort, as well as the conceptual simplicity of DMP, will make it a useful tool in epidemic modeling, especially for high-dimensional inference tasks.

  12. The co-adaptive neural network approach to the Euclidean Travelling Salesman Problem.

    PubMed

    Cochrane, E M; Beasley, J E

    2003-12-01

    In this paper we consider the Euclidean Travelling Salesman Problem (ETSP). This is the problem of finding the shortest tour around a number of cities where the cities correspond to points in the Euclidean plane and the distances between cities are given by the usual Euclidean distance metric. We present a review of the literature with respect to neural network (NN) approaches for the ETSP, and the computational results that have been reported. Based upon this review we highlight two areas that are, in our judgement, currently neglected/lacking in the literature. These are: failure to make significant use of publicly available ETSP test problems in computational work, failure to address co-operation between neurons. Drawing upon our literature survey this paper presents a new Self-Organising NN approach, called the Co-Adaptive Net, which involves not just unsupervised learning to train neurons, but also allows neurons to co-operate and compete amongst themselves depending on their situation. Our Co-Adaptive Net algorithm also includes a number of algorithmic mechanisms that, based upon our literature review, we consider to have contributed to the computational success of previous algorithms. Results for 91 publicly available standard ETSP's are presented in this paper. The largest of these problems involves 85,900 cities. This paper presents: the most extensive computational evaluation of any NN approach on publicly available ETSP test problems that has been made to date in the literature, a NN approach that performs better, with respect to solution quality and/or computation time, than other NN approaches given previously in the literature. Drawing upon computational results produced as a result of the DIMACS TSP Challenge, we highlight the fact that none of the current NN approaches for the ETSP can compete with state of the art Operations Research heuristics. We discuss why we consider continuing to study and develop NN approaches for the ETSP to be of value.

  13. Advantages of mixing bioinformatics and visualization approaches for analyzing sRNA-mediated regulatory bacterial networks

    PubMed Central

    Bourqui, Romain; Benchimol, William; Gaspin, Christine; Sirand-Pugnet, Pascal; Uricaru, Raluca; Dutour, Isabelle

    2015-01-01

    The revolution in high-throughput sequencing technologies has enabled the acquisition of gigabytes of RNA sequences in many different conditions and has highlighted an unexpected number of small RNAs (sRNAs) in bacteria. Ongoing exploitation of these data enables numerous applications for investigating bacterial transacting sRNA-mediated regulation networks. Focusing on sRNAs that regulate mRNA translation in trans, recent works have noted several sRNA-based regulatory pathways that are essential for key cellular processes. Although the number of known bacterial sRNAs is increasing, the experimental validation of their interactions with mRNA targets remains challenging and involves expensive and time-consuming experimental strategies. Hence, bioinformatics is crucial for selecting and prioritizing candidates before designing any experimental work. However, current software for target prediction produces a prohibitive number of candidates because of the lack of biological knowledge regarding the rules governing sRNA–mRNA interactions. Therefore, there is a real need to develop new approaches to help biologists focus on the most promising predicted sRNA–mRNA interactions. In this perspective, this review aims at presenting the advantages of mixing bioinformatics and visualization approaches for analyzing predicted sRNA-mediated regulatory bacterial networks. PMID:25477348

  14. Network approach to the pinning control of drift-wave turbulence.

    PubMed

    Liu, Panpan; Deng, Zhigang; Yang, Lei; Zhan, Meng; Wang, Xingang

    2014-06-01

    Network of coupled oscillators has long been employed as an important approach to explore the complicated dynamics in spatially extended systems. Here we show how this approach can be used to the analysis of turbulence pinning control. Specifically, by use of a model of two-dimensional drift-wave plasma turbulence, we investigate how the performance of the turbulence control is influenced by the spatial distribution of the pinning strength. It is found that the dynamics of pinned turbulence can be well captured by a simple model of networked modes, based on which the dependence of the control performance on the pinning distribution can be analytically obtained. In particular, the model predicts that as the distribution of the pinning strength becomes more nonuniform, the performance of turbulence control will be gradually decreased. This theoretical prediction is in good agreement with the results of numerical simulations, including the sinusoidal and localized pinning distributions. Our studies provide a new viewpoint to the mechanism of mode couplings in drift-wave turbulence, as well as be constructive to the design of new schemes for controlling turbulence in realistic systems.

  15. An Airway Network Flow Assignment Approach Based on an Efficient Multiobjective Optimization Framework

    PubMed Central

    Guan, Xiangmin; Zhang, Xuejun; Zhu, Yanbo; Sun, Dengfeng; Lei, Jiaxing

    2015-01-01

    Considering reducing the airspace congestion and the flight delay simultaneously, this paper formulates the airway network flow assignment (ANFA) problem as a multiobjective optimization model and presents a new multiobjective optimization framework to solve it. Firstly, an effective multi-island parallel evolution algorithm with multiple evolution populations is employed to improve the optimization capability. Secondly, the nondominated sorting genetic algorithm II is applied for each population. In addition, a cooperative coevolution algorithm is adapted to divide the ANFA problem into several low-dimensional biobjective optimization problems which are easier to deal with. Finally, in order to maintain the diversity of solutions and to avoid prematurity, a dynamic adjustment operator based on solution congestion degree is specifically designed for the ANFA problem. Simulation results using the real traffic data from China air route network and daily flight plans demonstrate that the proposed approach can improve the solution quality effectively, showing superiority to the existing approaches such as the multiobjective genetic algorithm, the well-known multiobjective evolutionary algorithm based on decomposition, and a cooperative coevolution multiobjective algorithm as well as other parallel evolution algorithms with different migration topology. PMID:26180840

  16. Altered functional connectivity of the default mode network in Williams syndrome: a multimodal approach.

    PubMed

    Sampaio, Adriana; Moreira, Pedro Silva; Osório, Ana; Magalhães, Ricardo; Vasconcelos, Cristiana; Férnandez, Montse; Carracedo, Angel; Alegria, Joana; Gonçalves, Óscar F; Soares, José Miguel

    2016-07-01

    Resting state brain networks are implicated in a variety of relevant brain functions. Importantly, abnormal patterns of functional connectivity (FC) have been reported in several neurodevelopmental disorders. In particular, the Default Mode Network (DMN) has been found to be associated with social cognition. We hypothesize that the DMN may be altered in Williams syndrome (WS), a neurodevelopmental genetic disorder characterized by an unique cognitive and behavioral phenotype. In this study, we assessed the architecture of the DMN using fMRI in WS patients and typically developing matched controls (sex and age) in terms of FC and volumetry of the DMN. Moreover, we complemented the analysis with a functional connectome approach. After excluding participants due to movement artifacts (n = 3), seven participants with WS and their respective matched controls were included in the analyses. A decreased FC between the DMN regions was observed in the WS group when compared with the typically developing group. Specifically, we found a decreased FC in a posterior hub of the DMN including the precuneus, calcarine and the posterior cingulate of the left hemisphere. The functional connectome approach showed a focalized and global increased FC connectome in the WS group. The reduced FC of the posterior hub of the DMN in the WS group is consistent with immaturity of the brain FC patterns and may be associated with the singularity of their visual spatial phenotype. PMID:27412230

  17. Microbial metabolic networks in a complex electrogenic biofilm recovered from a stimulus-induced metatranscriptomics approach.

    PubMed

    Ishii, Shun'ichi; Suzuki, Shino; Tenney, Aaron; Norden-Krichmar, Trina M; Nealson, Kenneth H; Bretschger, Orianna

    2015-10-07

    Microorganisms almost always exist as mixed communities in nature. While the significance of microbial community activities is well appreciated, a thorough understanding about how microbial communities respond to environmental perturbations has not yet been achieved. Here we have used a combination of metagenomic, genome binning, and stimulus-induced metatranscriptomic approaches to estimate the metabolic network and stimuli-induced metabolic switches existing in a complex microbial biofilm that was producing electrical current via extracellular electron transfer (EET) to a solid electrode surface. Two stimuli were employed: to increase EET and to stop EET. An analysis of cell activity marker genes after stimuli exposure revealed that only two strains within eleven binned genomes had strong transcriptional responses to increased EET rates, with one responding positively and the other responding negatively. Potential metabolic switches between eleven dominant members were mainly observed for acetate, hydrogen, and ethanol metabolisms. These results have enabled the estimation of a multi-species metabolic network and the associated short-term responses to EET stimuli that induce changes to metabolic flow and cooperative or competitive microbial interactions. This systematic meta-omics approach represents a next step towards understanding complex microbial roles within a community and how community members respond to specific environmental stimuli.

  18. Neural-Network Approach to Hyperspectral Data Analysis for Volcanic Ash Clouds Monitoring

    NASA Astrophysics Data System (ADS)

    Piscini, Alessandro; Ventress, Lucy; Carboni, Elisa; Granger, Roy Gordon; Del Frate, Fabio

    2015-06-01

    In this study three artificial neural networks (ANN) were implemented in order to emulate a retrieval model and to estimate the ash Aerosol optical Depth (AOD), particle effective radius (reff) and cloud height from volcanic eruption using hyperspectral remotely sensed data. ANNs were trained using a selection of Infrared Atmospheric Sounding Interferometer (IASI) channels in Thermal Infrared (TIR) as inputs, and the corresponding ash parameters retrieved obtained using the Oxford retrievals as target outputs. The retrieval is demonstrated for the eruption of the Eyjafjallajokull volcano (Iceland) occurred in 2010. The results of validation provided root mean square error (RMSE) values between neural network outputs and targets lower than standard deviation (STD) of corresponding target outputs, therefore demonstrating the feasibility to estimate volcanic ash parameters using an ANN approach, and its importance in near real time monitoring activities, owing to its fast application. A high accuracy has been achieved for reff and cloud height estimation, while a decreasing in accuracy was obtained when applying the NN approach for AOD estimation, in particular for those values not well characterized during NN training phase.

  19. An empirical Bayesian approach for model-based inference of cellular signaling networks

    PubMed Central

    2009-01-01

    Background A common challenge in systems biology is to infer mechanistic descriptions of biological process given limited observations of a biological system. Mathematical models are frequently used to represent a belief about the causal relationships among proteins within a signaling network. Bayesian methods provide an attractive framework for inferring the validity of those beliefs in the context of the available data. However, efficient sampling of high-dimensional parameter space and appropriate convergence criteria provide barriers for implementing an empirical Bayesian approach. The objective of this study was to apply an Adaptive Markov chain Monte Carlo technique to a typical study of cellular signaling pathways. Results As an illustrative example, a kinetic model for the early signaling events associated with the epidermal growth factor (EGF) signaling network was calibrated against dynamic measurements observed in primary rat hepatocytes. A convergence criterion, based upon the Gelman-Rubin potential scale reduction factor, was applied to the model predictions. The posterior distributions of the parameters exhibited complicated structure, including significant covariance between specific parameters and a broad range of variance among the parameters. The model predictions, in contrast, were narrowly distributed and were used to identify areas of agreement among a collection of experimental studies. Conclusion In summary, an empirical Bayesian approach was developed for inferring the confidence that one can place in a particular model that describes signal transduction mechanisms and for inferring inconsistencies in experimental measurements. PMID:19900289

  20. Microbial metabolic networks in a complex electrogenic biofilm recovered from a stimulus-induced metatranscriptomics approach

    PubMed Central

    Ishii, Shun’ichi; Suzuki, Shino; Tenney, Aaron; Norden-Krichmar, Trina M.; Nealson, Kenneth H.; Bretschger, Orianna

    2015-01-01

    Microorganisms almost always exist as mixed communities in nature. While the significance of microbial community activities is well appreciated, a thorough understanding about how microbial communities respond to environmental perturbations has not yet been achieved. Here we have used a combination of metagenomic, genome binning, and stimulus-induced metatranscriptomic approaches to estimate the metabolic network and stimuli-induced metabolic switches existing in a complex microbial biofilm that was producing electrical current via extracellular electron transfer (EET) to a solid electrode surface. Two stimuli were employed: to increase EET and to stop EET. An analysis of cell activity marker genes after stimuli exposure revealed that only two strains within eleven binned genomes had strong transcriptional responses to increased EET rates, with one responding positively and the other responding negatively. Potential metabolic switches between eleven dominant members were mainly observed for acetate, hydrogen, and ethanol metabolisms. These results have enabled the estimation of a multi-species metabolic network and the associated short-term responses to EET stimuli that induce changes to metabolic flow and cooperative or competitive microbial interactions. This systematic meta-omics approach represents a next step towards understanding complex microbial roles within a community and how community members respond to specific environmental stimuli. PMID:26443302

  1. An Airway Network Flow Assignment Approach Based on an Efficient Multiobjective Optimization Framework.

    PubMed

    Guan, Xiangmin; Zhang, Xuejun; Zhu, Yanbo; Sun, Dengfeng; Lei, Jiaxing

    2015-01-01

    Considering reducing the airspace congestion and the flight delay simultaneously, this paper formulates the airway network flow assignment (ANFA) problem as a multiobjective optimization model and presents a new multiobjective optimization framework to solve it. Firstly, an effective multi-island parallel evolution algorithm with multiple evolution populations is employed to improve the optimization capability. Secondly, the nondominated sorting genetic algorithm II is applied for each population. In addition, a cooperative coevolution algorithm is adapted to divide the ANFA problem into several low-dimensional biobjective optimization problems which are easier to deal with. Finally, in order to maintain the diversity of solutions and to avoid prematurity, a dynamic adjustment operator based on solution congestion degree is specifically designed for the ANFA problem. Simulation results using the real traffic data from China air route network and daily flight plans demonstrate that the proposed approach can improve the solution quality effectively, showing superiority to the existing approaches such as the multiobjective genetic algorithm, the well-known multiobjective evolutionary algorithm based on decomposition, and a cooperative coevolution multiobjective algorithm as well as other parallel evolution algorithms with different migration topology. PMID:26180840

  2. Two-dimensional magnetic modeling of ferromagnetic materials by using a neural networks based hybrid approach

    NASA Astrophysics Data System (ADS)

    Cardelli, E.; Faba, A.; Laudani, A.; Lozito, G. M.; Riganti Fulginei, F.; Salvini, A.

    2016-04-01

    This paper presents a hybrid neural network approach to model magnetic hysteresis at macro-magnetic scale. That approach aims to be coupled together with numerical treatments of magnetic hysteresis such as FEM numerical solvers of the Maxwell's equations in time domain, as in case of the non-linear dynamic analysis of electrical machines, and other similar devices, allowing a complete computer simulation with acceptable run times. The proposed Hybrid Neural System consists of four inputs representing the magnetic induction and magnetic field components at each time step and it is trained by 2D and scalar measurements performed on the magnetic material to be modeled. The magnetic induction B is assumed as entry point and the output of the Hybrid Neural System returns the predicted value of the field H at the same time step. Within the Hybrid Neural System, a suitably trained neural network is used for predicting the hysteretic behavior of the material to be modeled. Validations with experimental tests and simulations for symmetric, non-symmetric and minor loops are presented.

  3. Systems biology approaches to defining transcription regulatory networks in halophilic archaea.

    PubMed

    Darnell, Cynthia L; Schmid, Amy K

    2015-09-15

    To survive complex and changing environmental conditions, microorganisms use gene regulatory networks (GRNs) composed of interacting regulatory transcription factors (TFs) to control the timing and magnitude of gene expression. Genome-wide datasets; such as transcriptomics and protein-DNA interactions; and experiments such as high throughput growth curves; facilitate the construction of GRNs and provide insight into TF interactions occurring under stress. Systems biology approaches integrate these datasets into models of GRN architecture as well as statistical and/or dynamical models to understand the function of networks occurring in cells. Previously, these types of studies have focused on traditional model organisms (e.g. Escherichia coli, yeast). However, recent advances in archaeal genetics and other tools have enabled a systems approach to understanding GRNs in these relatively less studied archaeal model organisms. In this report, we outline a systems biology workflow for generating and integrating data focusing on the TF regulator. We discuss experimental design, outline the process of data collection, and provide the tools required to produce high confidence regulons for the TFs of interest. We provide a case study as an example of this workflow, describing the construction of a GRN centered on multi-TF coordinate control of gene expression governing the oxidative stress response in the hypersaline-adapted archaeon Halobacterium salinarum.

  4. Modeling languages for biochemical network simulation: reaction vs equation based approaches.

    PubMed

    Wiechert, Wolfgang; Noack, Stephan; Elsheikh, Atya

    2010-01-01

    Biochemical network modeling and simulation is an essential task in any systems biology project. The systems biology markup language (SBML) was established as a standardized model exchange language for mechanistic models. A specific strength of SBML is that numerous tools for formulating, processing, simulation and analysis of models are freely available. Interestingly, in the field of multidisciplinary simulation, the problem of model exchange between different simulation tools occurred much earlier. Several general modeling languages like Modelica have been developed in the 1990s. Modelica enables an equation based modular specification of arbitrary hierarchical differential algebraic equation models. Moreover, libraries for special application domains can be rapidly developed. This contribution compares the reaction based approach of SBML with the equation based approach of Modelica and explains the specific strengths of both tools. Several biological examples illustrating essential SBML and Modelica concepts are given. The chosen criteria for tool comparison are flexibility for constraint specification, different modeling flavors, hierarchical, modular and multidisciplinary modeling. Additionally, support for spatially distributed systems, event handling and network analysis features is discussed. As a major result it is shown that the choice of the modeling tool has a strong impact on the expressivity of the specified models but also strongly depends on the requirements of the application context.

  5. A Systems Biology Approach Identifies a Regulatory Network in Parotid Acinar Cell Terminal Differentiation

    PubMed Central

    Metzler, Melissa A.; Venkatesh, Srirangapatnam G.; Lakshmanan, Jaganathan; Carenbauer, Anne L.; Perez, Sara M.; Andres, Sarah A.; Appana, Savitri; Brock, Guy N.; Wittliff, James L.; Darling, Douglas S.

    2015-01-01

    Objective The transcription factor networks that drive parotid salivary gland progenitor cells to terminally differentiate, remain largely unknown and are vital to understanding the regeneration process. Methodology A systems biology approach was taken to measure mRNA and microRNA expression in vivo across acinar cell terminal differentiation in the rat parotid salivary gland. Laser capture microdissection (LCM) was used to specifically isolate acinar cell RNA at times spanning the month-long period of parotid differentiation. Results Clustering of microarray measurements suggests that expression occurs in four stages. mRNA expression patterns suggest a novel role for Pparg which is transiently increased during mid postnatal differentiation in concert with several target gene mRNAs. 79 microRNAs are significantly differentially expressed across time. Profiles of statistically significant changes of mRNA expression, combined with reciprocal correlations of microRNAs and their target mRNAs, suggest a putative network involving Klf4, a differentiation inhibiting transcription factor, which decreases as several targeting microRNAs increase late in differentiation. The network suggests a molecular switch (involving Prdm1, Sox11, Pax5, miR-200a, and miR-30a) progressively decreases repression of Xbp1 gene transcription, in concert with decreased translational repression by miR-214. The transcription factor Xbp1 mRNA is initially low, increases progressively, and may be maintained by a positive feedback loop with Atf6. Transfection studies show that Xbp1Mist1 promoter. In addition, Xbp1 and Mist1 each activate the parotid secretory protein (Psp) gene, which encodes an abundant salivary protein, and is a marker of terminal differentiation. Conclusion This study identifies novel expression patterns of Pparg, Klf4, and Sox11 during parotid acinar cell differentiation, as well as numerous differentially expressed microRNAs. Network analysis identifies a novel stemness arm, a

  6. Optimizing neural networks for river flow forecasting - Evolutionary Computation methods versus the Levenberg-Marquardt approach

    NASA Astrophysics Data System (ADS)

    Piotrowski, Adam P.; Napiorkowski, Jarosław J.

    2011-09-01

    SummaryAlthough neural networks have been widely applied to various hydrological problems, including river flow forecasting, for at least 15 years, they have usually been trained by means of gradient-based algorithms. Recently nature inspired Evolutionary Computation algorithms have rapidly developed as optimization methods able to cope not only with non-differentiable functions but also with a great number of local minima. Some of proposed Evolutionary Computation algorithms have been tested for neural networks training, but publications which compare their performance with gradient-based training methods are rare and present contradictory conclusions. The main goal of the present study is to verify the applicability of a number of recently developed Evolutionary Computation optimization methods, mostly from the Differential Evolution family, to multi-layer perceptron neural networks training for daily rainfall-runoff forecasting. In the present paper eight Evolutionary Computation methods, namely the first version of Differential Evolution (DE), Distributed DE with Explorative-Exploitative Population Families, Self-Adaptive DE, DE with Global and Local Neighbors, Grouping DE, JADE, Comprehensive Learning Particle Swarm Optimization and Efficient Population Utilization Strategy Particle Swarm Optimization are tested against the Levenberg-Marquardt algorithm - probably the most efficient in terms of speed and success rate among gradient-based methods. The Annapolis River catchment was selected as the area of this study due to its specific climatic conditions, characterized by significant seasonal changes in runoff, rapid floods, dry summers, severe winters with snowfall, snow melting, frequent freeze and thaw, and presence of river ice - conditions which make flow forecasting more troublesome. The overall performance of the Levenberg-Marquardt algorithm and the DE with Global and Local Neighbors method for neural networks training turns out to be superior to other

  7. A Social Network Approach Reveals Associations between Mouse Social Dominance and Brain Gene Expression.

    PubMed

    So, Nina; Franks, Becca; Lim, Sean; Curley, James P

    2015-01-01

    Modelling complex social behavior in the laboratory is challenging and requires analyses of dyadic interactions occurring over time in a physically and socially complex environment. In the current study, we approached the analyses of complex social interactions in group-housed male CD1 mice living in a large vivarium. Intensive observations of social interactions during a 3-week period indicated that male mice form a highly linear and steep dominance hierarchy that is maintained by fighting and chasing behaviors. Individual animals were classified as dominant, sub-dominant or subordinate according to their David's Scores and I& SI ranking. Using a novel dynamic temporal Glicko rating method, we ascertained that the dominance hierarchy was stable across time. Using social network analyses, we characterized the behavior of individuals within 66 unique relationships in the social group. We identified two individual network metrics, Kleinberg's Hub Centrality and Bonacich's Power Centrality, as accurate predictors of individual dominance and power. Comparing across behaviors, we establish that agonistic, grooming and sniffing social networks possess their own distinctive characteristics in terms of density, average path length, reciprocity out-degree centralization and out-closeness centralization. Though grooming ties between individuals were largely independent of other social networks, sniffing relationships were highly predictive of the directionality of agonistic relationships. Individual variation in dominance status was associated with brain gene expression, with more dominant individuals having higher levels of corticotropin releasing factor mRNA in the medial and central nuclei of the amygdala and the medial preoptic area of the hypothalamus, as well as higher levels of hippocampal glucocorticoid receptor and brain-derived neurotrophic factor mRNA. This study demonstrates the potential and significance of combining complex social housing and intensive

  8. A Electric Load Forecasting Approach Using Expert Systems and Artificial Neural Networks.

    NASA Astrophysics Data System (ADS)

    Moharari, Nader Shariat

    The knowledge of accurate electric load demand is desirable for a variety of reasons. Smooth and economic operation of power systems is dependent upon reliable load forecasting. Large errors in load estimates could be costly. While accurate electric load forecasting will help in reducing operating costs by arranging to maintain and run the most economic generating plants to meet consumer demand at any time. In this dissertation a short-term load forecasting model is introduced (Rule-Based ANN model). The model makes use of Artificial Neural Networks (ANN) and Expert Systems (ES). In the proposed model an auxiliary network (sub net), driven by the ES has been utilized to adjust the biases for the main network. The Expert System is based on a set of rules which have been established according to an analysis of historical patterns. The role of ES is to tune the input components for the auxiliary net. The general forecasting process is as follows: the raw data files act as input for the Expert System. Then based on the rules and information available in the raw data files the ES goes through a reasoning process in order to prepare the processed data files for both auxiliary and main networks. These processed data files are then introduced to the ANN for training and prediction purposes. The model is capable of hourly load forecasting for the next 168 hours which is necessary for unit commitment. The model is also able to predict daily peak load for one week ahead. Evaluation tests have proven the viability of this approach. The results generated by this model have been compared with some other production grade packages in most cases the Rule-Based ANN model has performed superior.

  9. A Social Network Approach Reveals Associations between Mouse Social Dominance and Brain Gene Expression

    PubMed Central

    So, Nina; Franks, Becca; Lim, Sean; Curley, James P.

    2015-01-01

    Modelling complex social behavior in the laboratory is challenging and requires analyses of dyadic interactions occurring over time in a physically and socially complex environment. In the current study, we approached the analyses of complex social interactions in group-housed male CD1 mice living in a large vivarium. Intensive observations of social interactions during a 3-week period indicated that male mice form a highly linear and steep dominance hierarchy that is maintained by fighting and chasing behaviors. Individual animals were classified as dominant, sub-dominant or subordinate according to their David’s Scores and I& SI ranking. Using a novel dynamic temporal Glicko rating method, we ascertained that the dominance hierarchy was stable across time. Using social network analyses, we characterized the behavior of individuals within 66 unique relationships in the social group. We identified two individual network metrics, Kleinberg’s Hub Centrality and Bonacich’s Power Centrality, as accurate predictors of individual dominance and power. Comparing across behaviors, we establish that agonistic, grooming and sniffing social networks possess their own distinctive characteristics in terms of density, average path length, reciprocity out-degree centralization and out-closeness centralization. Though grooming ties between individuals were largely independent of other social networks, sniffing relationships were highly predictive of the directionality of agonistic relationships. Individual variation in dominance status was associated with brain gene expression, with more dominant individuals having higher levels of corticotropin releasing factor mRNA in the medial and central nuclei of the amygdala and the medial preoptic area of the hypothalamus, as well as higher levels of hippocampal glucocorticoid receptor and brain-derived neurotrophic factor mRNA. This study demonstrates the potential and significance of combining complex social housing and intensive

  10. Portraying emotions at their unfolding: a multilayered approach for probing dynamics of neural networks.

    PubMed

    Raz, Gal; Winetraub, Yonatan; Jacob, Yael; Kinreich, Sivan; Maron-Katz, Adi; Shaham, Galit; Podlipsky, Ilana; Gilam, Gadi; Soreq, Eyal; Hendler, Talma

    2012-04-01

    Dynamic functional integration of distinct neural systems plays a pivotal role in emotional experience. We introduce a novel approach for studying emotion-related changes in the interactions within and between networks using fMRI. It is based on continuous computation of a network cohesion index (NCI), which is sensitive to both strength and variability of signal correlations between pre-defined regions. The regions encompass three clusters (namely limbic, medial prefrontal cortex (mPFC) and cognitive), each previously was shown to be involved in emotional processing. Two sadness-inducing film excerpts were viewed passively, and comparisons between viewer's rated sadness, parasympathetic, and inter-NCI and intra-NCI were obtained. Limbic intra-NCI was associated with reported sadness in both movies. However, the correlation between the parasympathetic-index, the rated sadness and the limbic-NCI occurred in only one movie, possibly related to a "deactivated" pattern of sadness. In this film, rated sadness intensity also correlated with the mPFC intra-NCI, possibly reflecting temporal correspondence between sadness and sympathy. Further, only for this movie, we found an association between sadness rating and the mPFC-limbic inter-NCI time courses. To the contrary, in the other film in which sadness was reported to commingle with horror and anger, dramatic events coincided with disintegration of these networks. Together, this may point to a difference between the cinematic experiences with regard to inter-network dynamics related to emotional regulation. These findings demonstrate the advantage of a multi-layered dynamic analysis for elucidating the uniqueness of emotional experiences with regard to an unguided processing of continuous and complex stimulation. PMID:22285693

  11. SAMNet: a network-based approach to integrate multi-dimensional high throughput datasets

    PubMed Central

    Gosline, Sara JC; Spencer, Sarah J; Ursu, Oana; Fraenkel, Ernest

    2012-01-01

    The rapid development of high throughput biotechnologies has led to an onslaught of data describing genetic perturbations and changes in mRNA and protein levels in the cell. Because each assay provides a one-dimensional snapshot of active signaling pathways, it has become desirable to perform multiple assays (e.g. mRNA expression and phospho-proteomics) to measure a single condition. However, as experiments expand to accommodate various cellular conditions, proper analysis and interpretation of these data have become more challenging. Here we introduce a novel approach called SAMNet, for Simultaneous Analysis of Multiple Networks, that is able to interpret diverse assays over multiple perturbations. The algorithm uses a constrained optimization approach to integrate mRNA expression data with upstream genes, selecting edges in the protein-protein interaction network that best explain the changes across all perturbations. The result is a putative set of protein interactions that succinctly summarizes the results from all experiments, highlighting the network elements unique to each perturbation. We evaluated SAMNet in both yeast and human datasets. The yeast dataset measured the cellular response to seven different transition metals, and the human dataset measured cellular changes in four different lung cancer models of Epithelial-Mesenchymal Transition (EMT), a crucial process in tumor metastasis. SAMNet was able to identify canonical yeast metal –processing genes unique to each commodity in the yeast dataset, as well as human genes such as β-catenin and TCF7L2/TCF4 that are required for EMT signaling but escaped detection in the mRNA and phospho-proteomic data. Moreover, SAMNet also highlighted drugs likely to modulate EMT, identifying a series of less canonical genes known to be affected by the BCR-ABL inhibitor imatinib (Gleevec), suggesting a possible influence of this drug on EMT. PMID:23060147

  12. Current Trends in Wireless Mesh Sensor Networks: A Review of Competing Approaches

    PubMed Central

    Rodenas-Herraiz, David; Garcia-Sanchez, Antonio-Javier; Garcia-Sanchez, Felipe; Garcia-Haro, Joan

    2013-01-01

    Finding a complete mesh-based solution for low-rate wireless personal area networks (LR-WPANs) is still an open issue. To cope with this concern, different competing approaches have emerged in the Wireless Mesh Sensor Networks (WMSNs) field in the last few years. They are usually supported by the IEEE 802.15.4 standard, the most commonly adopted LR-WPAN recommendation for point-to-point topologies. In this work, we review the most relevant and up-to-date WMSN solutions that extend the IEEE 802.15.4 standard to multi-hop mesh networks. To conduct this review, we start by identifying the most significant WMSN requirements (i.e., interoperability, robustness, scalability, mobility or energy-efficiency) that reveal the benefits and shortcomings of each proposal. Then, we re-examine thoroughly the group of proposals following different design guidelines which are usually considered by end-users and developers. Among all of the approaches reviewed, we highlight the IEEE 802.15.5 standard, a recent recommendation that, in its LR-WPAN version, fully satisfies the greatest number of WMSN requirements. As a result, IEEE 802.15.5 can be an appropriate solution for a wide-range of applications, unlike the majority of the remaining solutions reviewed, which are usually designed to solve particular problems, for instance in the home, building and industrial sectors. In this sense, a description of IEEE 802.15.5 is also included, paying special attention to its efficient energy-saving mechanisms. Finally, possible improvements of this recommendation are pointed out in order to offer hints for future research. PMID:23666128

  13. Artificial neural network approach for moiré fringe center determination

    NASA Astrophysics Data System (ADS)

    Woo, Wing Hon; Ratnam, Mani Maran; Yen, Kin Sam

    2015-11-01

    The moiré effect has been used in high-accuracy positioning and alignment systems for decades. Various methods have been proposed to identify and locate moiré fringes in order to relate the pattern information to dimensional and displacement measurement. These methods can be broadly categorized into manual interpretation based on human knowledge and image processing based on computational algorithms. An artificial neural network (ANN) is proposed to locate moiré fringe centers within circular grating moiré patterns. This ANN approach aims to mimic human decision making by eliminating complex mathematical computations or time-consuming image processing algorithms in moiré fringe recognition. A feed-forward backpropagation ANN architecture was adopted in this work. Parametric studies were performed to optimize the ANN architecture. The finalized ANN approach was able to determine the location of the fringe centers with average deviations of 3.167 pixels out of 200 pixels (≈1.6%) and 6.166 pixels out of 200 pixels (≈3.1%) for real moiré patterns that lie within and outside the training intervals, respectively. In addition, a reduction of 43.4% in the computational time was reported using the ANN approach. Finally, the applicability of the ANN approach for moiré fringe center determination was confirmed.

  14. Hierarchical organization of functional connectivity in the mouse brain: a complex network approach

    NASA Astrophysics Data System (ADS)

    Bardella, Giampiero; Bifone, Angelo; Gabrielli, Andrea; Gozzi, Alessandro; Squartini, Tiziano

    2016-08-01

    This paper represents a contribution to the study of the brain functional connectivity from the perspective of complex networks theory. More specifically, we apply graph theoretical analyses to provide evidence of the modular structure of the mouse brain and to shed light on its hierarchical organization. We propose a novel percolation analysis and we apply our approach to the analysis of a resting-state functional MRI data set from 41 mice. This approach reveals a robust hierarchical structure of modules persistent across different subjects. Importantly, we test this approach against a statistical benchmark (or null model) which constrains only the distributions of empirical correlations. Our results unambiguously show that the hierarchical character of the mouse brain modular structure is not trivially encoded into this lower-order constraint. Finally, we investigate the modular structure of the mouse brain by computing the Minimal Spanning Forest, a technique that identifies subnetworks characterized by the strongest internal correlations. This approach represents a faster alternative to other community detection methods and provides a means to rank modules on the basis of the strength of their internal edges.

  15. Structural Design Principles of Complex Bird Songs: A Network-Based Approach

    PubMed Central

    Sasahara, Kazutoshi; Cody, Martin L.; Cohen, David; Taylor, Charles E.

    2012-01-01

    Bird songs are acoustic communication signals primarily used in male-male aggression and in male-female attraction. These are often monotonous patterns composed of a few phrases, yet some birds have extremely complex songs with a large phrase repertoire, organized in non-random fashion with discernible patterns. Since structure is typically associated with function, the structures of complex bird songs provide important clues to the evolution of animal communication systems. Here we propose an efficient network-based approach to explore structural design principles of complex bird songs, in which the song networks–transition relationships among different phrases and the related structural measures–are employed. We demonstrate how this approach works with an example using California Thrasher songs, which are sequences of highly varied phrases delivered in succession over several minutes. These songs display two distinct features: a large phrase repertoire with a ‘small-world’ architecture, in which subsets of phrases are highly grouped and linked with a short average path length; and a balanced transition diversity amongst phrases, in which deterministic and non-deterministic transition patterns are moderately mixed. We explore the robustness of this approach with variations in sample size and the amount of noise. Our approach enables a more quantitative study of global and local structural properties of complex bird songs than has been possible to date. PMID:23028539

  16. Hierarchical organization of functional connectivity in the mouse brain: a complex network approach.

    PubMed

    Bardella, Giampiero; Bifone, Angelo; Gabrielli, Andrea; Gozzi, Alessandro; Squartini, Tiziano

    2016-01-01

    This paper represents a contribution to the study of the brain functional connectivity from the perspective of complex networks theory. More specifically, we apply graph theoretical analyses to provide evidence of the modular structure of the mouse brain and to shed light on its hierarchical organization. We propose a novel percolation analysis and we apply our approach to the analysis of a resting-state functional MRI data set from 41 mice. This approach reveals a robust hierarchical structure of modules persistent across different subjects. Importantly, we test this approach against a statistical benchmark (or null model) which constrains only the distributions of empirical correlations. Our results unambiguously show that the hierarchical character of the mouse brain modular structure is not trivially encoded into this lower-order constraint. Finally, we investigate the modular structure of the mouse brain by computing the Minimal Spanning Forest, a technique that identifies subnetworks characterized by the strongest internal correlations. This approach represents a faster alternative to other community detection methods and provides a means to rank modules on the basis of the strength of their internal edges. PMID:27534708

  17. Hierarchical organization of functional connectivity in the mouse brain: a complex network approach

    PubMed Central

    Bardella, Giampiero; Bifone, Angelo; Gabrielli, Andrea; Gozzi, Alessandro; Squartini, Tiziano

    2016-01-01

    This paper represents a contribution to the study of the brain functional connectivity from the perspective of complex networks theory. More specifically, we apply graph theoretical analyses to provide evidence of the modular structure of the mouse brain and to shed light on its hierarchical organization. We propose a novel percolation analysis and we apply our approach to the analysis of a resting-state functional MRI data set from 41 mice. This approach reveals a robust hierarchical structure of modules persistent across different subjects. Importantly, we test this approach against a statistical benchmark (or null model) which constrains only the distributions of empirical correlations. Our results unambiguously show that the hierarchical character of the mouse brain modular structure is not trivially encoded into this lower-order constraint. Finally, we investigate the modular structure of the mouse brain by computing the Minimal Spanning Forest, a technique that identifies subnetworks characterized by the strongest internal correlations. This approach represents a faster alternative to other community detection methods and provides a means to rank modules on the basis of the strength of their internal edges. PMID:27534708

  18. A Graphical Approach to Diagnosing the Validity of the Conditional Independence Assumptions of a Bayesian Network Given Data

    SciTech Connect

    Walsh, Stephen J.; Whitney, Paul D.

    2012-12-14

    Bayesian networks have attained widespread use in data analysis and decision making. Well studied topics include: efficient inference, evidence propagation, parameter learning from data for complete and incomplete data scenarios, expert elicitation for calibrating Bayesian network probabilities, and structure learning. It is not uncommon for the researcher to assume the structure of the Bayesian network or to glean the structure from expert elicitation or domain knowledge. In this scenario, the model may be calibrated through learning the parameters from relevant data. There is a lack of work on model diagnostics for fitted Bayesian networks; this is the contribution of this paper. We key on the definition of (conditional) independence to develop a graphical diagnostic method which indicates if the conditional independence assumptions imposed when one assumes the structure of the Bayesian network are supported by the data. We develop the approach theoretically and describe a Monte Carlo method to generate uncertainty measures for the consistency of the data with conditional independence assumptions under the model structure. We describe how this theoretical information and the data are presented in a graphical diagnostic tool. We demonstrate the approach through data simulated from Bayesian networks under different conditional independence assumptions. We also apply the diagnostic to a real world data set. The results indicate that our approach is a reasonable way of visualizing and inspecting the conditional independence assumption of a Bayesian network given data.

  19. A Network Pharmacology Approach to Evaluating the Efficacy of Chinese Medicine Using Genome-Wide Transcriptional Expression Data

    PubMed Central

    Wu, Leihong; Wang, Yi; Nie, Jing; Cheng, Yiyu

    2013-01-01

    The research of multicomponent drugs, such as in Chinese Medicine, on both mechanism dissection and drug discovery is challenging, especially the approaches to systematically evaluating the efficacy at a molecular level. Here, we presented a network pharmacology-based approach to evaluating the efficacy of multicomponent drugs by genome-wide transcriptional expression data and applied it to Shenmai injection (SHENMAI), a widely used Chinese Medicine composed of red ginseng (RG) and Radix Ophiopogonis (RO) in clinically treating myocardial ischemia (MI) diseases. The disease network, MI network in this case, was constructed by combining the protein-protein interactions (PPI) involved in the MI enriched pathways. The therapeutic efficacy of SHENMAI, RG, and RO was therefore evaluated by a network parameter, namely, network recovery index (NRI), which quantitatively evaluates the overall recovery rate in MI network. The NRI of SHENMAI, RG, and RO were 0.876, 0.494, and 0.269 respectively, which indicated SHENMAI exerts protective effects and the synergistic effect of RG and RO on treating myocardial ischemia disease. The successful application of SHENMAI implied that the proposed network pharmacology-based approach could help researchers to better evaluate a multicomponent drug on a systematic and molecular level. PMID:23737854

  20. Classification of boreal forest by satellite and inventory data using neural network approach

    NASA Astrophysics Data System (ADS)

    Romanov, A. A.

    2012-12-01

    The main objective of this research was to develop methodology for boreal (Siberian Taiga) land cover classification in a high accuracy level. The study area covers the territories of Central Siberian several parts along the Yenisei River (60-62 degrees North Latitude): the right bank includes mixed forest and dark taiga, the left - pine forests; so were taken as a high heterogeneity and statistically equal surfaces concerning spectral characteristics. Two main types of data were used: time series of middle spatial resolution satellite images (Landsat 5, 7 and SPOT4) and inventory datasets from the nature fieldworks (used for training samples sets preparation). Method of collecting field datasets included a short botany description (type/species of vegetation, density, compactness of the crowns, individual height and max/min diameters representative of each type, surface altitude of the plot), at the same time the geometric characteristic of each training sample unit corresponded to the spatial resolution of satellite images and geo-referenced (prepared datasets both of the preliminary processing and verification). The network of test plots was planned as irregular and determined by the landscape oriented approach. The main focus of the thematic data processing has been allocated for the use of neural networks (fuzzy logic inc.); therefore, the results of field studies have been converting input parameter of type / species of vegetation cover of each unit and the degree of variability. Proposed approach involves the processing of time series separately for each image mainly for the verification: shooting parameters taken into consideration (time, albedo) and thus expected to assess the quality of mapping. So the input variables for the networks were sensor bands, surface altitude, solar angels and land surface temperature (for a few experiments); also given attention to the formation of the formula class on the basis of statistical pre-processing of results of

  1. A mechanism design approach to bandwidth allocation in tactical data networks

    NASA Astrophysics Data System (ADS)

    Mour, Ankur

    The defense sector is undergoing a phase of rapid technological advancement, in the pursuit of its goal of information superiority. This goal depends on a large network of complex interconnected systems - sensors, weapons, soldiers - linked through a maze of heterogeneous networks. The sheer scale and size of these networks prompt behaviors that go beyond conglomerations of systems or `system-of-systems'. The lack of a central locus and disjointed, competing interests among large clusters of systems makes this characteristic of an Ultra Large Scale (ULS) system. These traits of ULS systems challenge and undermine the fundamental assumptions of today's software and system engineering approaches. In the absence of a centralized controller it is likely that system users may behave opportunistically to meet their local mission requirements, rather than the objectives of the system as a whole. In these settings, methods and tools based on economics and game theory (like Mechanism Design) are likely to play an important role in achieving globally optimal behavior, when the participants behave selfishly. Against this background, this thesis explores the potential of using computational mechanisms to govern the behavior of ultra-large-scale systems and achieve an optimal allocation of constrained computational resources Our research focusses on improving the quality and accuracy of the common operating picture through the efficient allocation of bandwidth in tactical data networks among self-interested actors, who may resort to strategic behavior dictated by self-interest. This research problem presents the kind of challenges we anticipate when we have to deal with ULS systems and, by addressing this problem, we hope to develop a methodology which will be applicable for ULS system of the future. We build upon the previous works which investigate the application of auction-based mechanism design to dynamic, performance-critical and resource-constrained systems of interest

  2. A Sparse Reconstruction Approach for Identifying Gene Regulatory Networks Using Steady-State Experiment Data

    PubMed Central

    Zhang, Wanhong; Zhou, Tong

    2015-01-01

    Motivation Identifying gene regulatory networks (GRNs) which consist of a large number of interacting units has become a problem of paramount importance in systems biology. Situations exist extensively in which causal interacting relationships among these units are required to be reconstructed from measured expression data and other a priori information. Though numerous classical methods have been developed to unravel the interactions of GRNs, these methods either have higher computing complexities or have lower estimation accuracies. Note that great similarities exist between identification of genes that directly regulate a specific gene and a sparse vector reconstruction, which often relates to the determination of the number, location and magnitude of nonzero entries of an unknown vector by solving an underdetermined system of linear equations y = Φx. Based on these similarities, we propose a novel framework of sparse reconstruction to identify the structure of a GRN, so as to increase accuracy of causal regulation estimations, as well as to reduce their computational complexity. Results In this paper, a sparse reconstruction framework is proposed on basis of steady-state experiment data to identify GRN structure. Different from traditional methods, this approach is adopted which is well suitable for a large-scale underdetermined problem in inferring a sparse vector. We investigate how to combine the noisy steady-state experiment data and a sparse reconstruction algorithm to identify causal relationships. Efficiency of this method is tested by an artificial linear network, a mitogen-activated protein kinase (MAPK) pathway network and the in silico networks of the DREAM challenges. The performance of the suggested approach is compared with two state-of-the-art algorithms, the widely adopted total least-squares (TLS) method and those available results on the DREAM project. Actual results show that, with a lower computational cost, the proposed method can

  3. An Integrated Approach to Reconstructing Genome-Scale Transcriptional Regulatory Networks

    PubMed Central

    Imam, Saheed; Noguera, Daniel R.; Donohue, Timothy J.

    2015-01-01

    Transcriptional regulatory networks (TRNs) program cells to dynamically alter their gene expression in response to changing internal or environmental conditions. In this study, we develop a novel workflow for generating large-scale TRN models that integrates comparative genomics data, global gene expression analyses, and intrinsic properties of transcription factors (TFs). An assessment of this workflow using benchmark datasets for the well-studied γ-proteobacterium Escherichia coli showed that it outperforms expression-based inference approaches, having a significantly larger area under the precision-recall curve. Further analysis indicated that this integrated workflow captures different aspects of the E. coli TRN than expression-based approaches, potentially making them highly complementary. We leveraged this new workflow and observations to build a large-scale TRN model for the α-Proteobacterium Rhodobacter sphaeroides that comprises 120 gene clusters, 1211 genes (including 93 TFs), 1858 predicted protein-DNA interactions and 76 DNA binding motifs. We found that ~67% of the predicted gene clusters in this TRN are enriched for functions ranging from photosynthesis or central carbon metabolism to environmental stress responses. We also found that members of many of the predicted gene clusters were consistent with prior knowledge in R. sphaeroides and/or other bacteria. Experimental validation of predictions from this R. sphaeroides TRN model showed that high precision and recall was also obtained for TFs involved in photosynthesis (PpsR), carbon metabolism (RSP_0489) and iron homeostasis (RSP_3341). In addition, this integrative approach enabled generation of TRNs with increased information content relative to R. sphaeroides TRN models built via other approaches. We also show how this approach can be used to simultaneously produce TRN models for each related organism used in the comparative genomics analysis. Our results highlight the advantages of integrating

  4. An integrated approach to reconstructing genome-scale transcriptional regulatory networks

    DOE PAGESBeta

    Imam, Saheed; Noguera, Daniel R.; Donohue, Timothy J.; Leslie, Christina

    2015-02-27

    Transcriptional regulatory networks (TRNs) program cells to dynamically alter their gene expression in response to changing internal or environmental conditions. In this study, we develop a novel workflow for generating large-scale TRN models that integrates comparative genomics data, global gene expression analyses, and intrinsic properties of transcription factors (TFs). An assessment of this workflow using benchmark datasets for the well-studied γ-proteobacterium Escherichia coli showed that it outperforms expression-based inference approaches, having a significantly larger area under the precision-recall curve. Further analysis indicated that this integrated workflow captures different aspects of the E. coli TRN than expression-based approaches, potentially making themmore » highly complementary. We leveraged this new workflow and observations to build a large-scale TRN model for the α-Proteobacterium Rhodobacter sphaeroides that comprises 120 gene clusters, 1211 genes (including 93 TFs), 1858 predicted protein-DNA interactions and 76 DNA binding motifs. We found that ~67% of the predicted gene clusters in this TRN are enriched for functions ranging from photosynthesis or central carbon metabolism to environmental stress responses. We also found that members of many of the predicted gene clusters were consistent with prior knowledge in R. sphaeroides and/or other bacteria. Experimental validation of predictions from this R. sphaeroides TRN model showed that high precision and recall was also obtained for TFs involved in photosynthesis (PpsR), carbon metabolism (RSP_0489) and iron homeostasis (RSP_3341). In addition, this integrative approach enabled generation of TRNs with increased information content relative to R. sphaeroides TRN models built via other approaches. We also show how this approach can be used to simultaneously produce TRN models for each related organism used in the comparative genomics analysis. Our results highlight the advantages of

  5. An integrated approach to reconstructing genome-scale transcriptional regulatory networks

    SciTech Connect

    Imam, Saheed; Noguera, Daniel R.; Donohue, Timothy J.; Leslie, Christina

    2015-02-27

    Transcriptional regulatory networks (TRNs) program cells to dynamically alter their gene expression in response to changing internal or environmental conditions. In this study, we develop a novel workflow for generating large-scale TRN models that integrates comparative genomics data, global gene expression analyses, and intrinsic properties of transcription factors (TFs). An assessment of this workflow using benchmark datasets for the well-studied γ-proteobacterium Escherichia coli showed that it outperforms expression-based inference approaches, having a significantly larger area under the precision-recall curve. Further analysis indicated that this integrated workflow captures different aspects of the E. coli TRN than expression-based approaches, potentially making them highly complementary. We leveraged this new workflow and observations to build a large-scale TRN model for the α-Proteobacterium Rhodobacter sphaeroides that comprises 120 gene clusters, 1211 genes (including 93 TFs), 1858 predicted protein-DNA interactions and 76 DNA binding motifs. We found that ~67% of the predicted gene clusters in this TRN are enriched for functions ranging from photosynthesis or central carbon metabolism to environmental stress responses. We also found that members of many of the predicted gene clusters were consistent with prior knowledge in R. sphaeroides and/or other bacteria. Experimental validation of predictions from this R. sphaeroides TRN model showed that high precision and recall was also obtained for TFs involved in photosynthesis (PpsR), carbon metabolism (RSP_0489) and iron homeostasis (RSP_3341). In addition, this integrative approach enabled generation of TRNs with increased information content relative to R. sphaeroides TRN models built via other approaches. We also show how this approach can be used to simultaneously produce TRN models for each related organism used in the comparative genomics analysis. Our results highlight the advantages of integrating

  6. An integrated approach to reconstructing genome-scale transcriptional regulatory networks.

    PubMed

    Imam, Saheed; Noguera, Daniel R; Donohue, Timothy J

    2015-02-01

    Transcriptional regulatory networks (TRNs) program cells to dynamically alter their gene expression in response to changing internal or environmental conditions. In this study, we develop a novel workflow for generating large-scale TRN models that integrates comparative genomics data, global gene expression analyses, and intrinsic properties of transcription factors (TFs). An assessment of this workflow using benchmark datasets for the well-studied γ-proteobacterium Escherichia coli showed that it outperforms expression-based inference approaches, having a significantly larger area under the precision-recall curve. Further analysis indicated that this integrated workflow captures different aspects of the E. coli TRN than expression-based approaches, potentially making them highly complementary. We leveraged this new workflow and observations to build a large-scale TRN model for the α-Proteobacterium Rhodobacter sphaeroides that comprises 120 gene clusters, 1211 genes (including 93 TFs), 1858 predicted protein-DNA interactions and 76 DNA binding motifs. We found that ~67% of the predicted gene clusters in this TRN are enriched for functions ranging from photosynthesis or central carbon metabolism to environmental stress responses. We also found that members of many of the predicted gene clusters were consistent with prior knowledge in R. sphaeroides and/or other bacteria. Experimental validation of predictions from this R. sphaeroides TRN model showed that high precision and recall was also obtained for TFs involved in photosynthesis (PpsR), carbon metabolism (RSP_0489) and iron homeostasis (RSP_3341). In addition, this integrative approach enabled generation of TRNs with increased information content relative to R. sphaeroides TRN models built via other approaches. We also show how this approach can be used to simultaneously produce TRN models for each related organism used in the comparative genomics analysis. Our results highlight the advantages of integrating

  7. A fuzzy Bayesian network approach to quantify the human behaviour during an evacuation

    NASA Astrophysics Data System (ADS)

    Ramli, Nurulhuda; Ghani, Noraida Abdul; Ahmad, Nazihah

    2016-06-01

    Bayesian Network (BN) has been regarded as a successful representation of inter-relationship of factors affecting human behavior during an emergency. This paper is an extension of earlier work of quantifying the variables involved in the BN model of human behavior during an evacuation using a well-known direct probability elicitation technique. To overcome judgment bias and reduce the expert's burden in providing precise probability values, a new approach for the elicitation technique is required. This study proposes a new fuzzy BN approach for quantifying human behavior during an evacuation. Three major phases of methodology are involved, namely 1) development of qualitative model representing human factors during an evacuation, 2) quantification of BN model using fuzzy probability and 3) inferencing and interpreting the BN result. A case study of three inter-dependencies of human evacuation factors such as danger assessment ability, information about the threat and stressful conditions are used to illustrate the application of the proposed method. This approach will serve as an alternative to the conventional probability elicitation technique in understanding the human behavior during an evacuation.

  8. Extrapolation of Calibration Curve of Hot-wire Spirometer Using a Novel Neural Network Based Approach.

    PubMed

    Ardekani, Mohammad Ali; Nafisi, Vahid Reza; Farhani, Foad

    2012-10-01

    Hot-wire spirometer is a kind of constant temperature anemometer (CTA). The working principle of CTA, used for the measurement of fluid velocity and flow turbulence, is based on convective heat transfer from a hot-wire sensor to a fluid being measured. The calibration curve of a CTA is nonlinear and cannot be easily extrapolated beyond its calibration range. Therefore, a method for extrapolation of CTA calibration curve will be of great practical application. In this paper, a novel approach based on the conventional neural network and self-organizing map (SOM) method has been proposed to extrapolate CTA calibration curve for measurement of velocity in the range 0.7-30 m/seconds. Results show that, using this approach for the extrapolation of the CTA calibration curve beyond its upper limit, the standard deviation is about -0.5%, which is acceptable in most cases. Moreover, this approach for the extrapolation of the CTA calibration curve below its lower limit produces standard deviation of about 4.5%, which is acceptable in spirometry applications. Finally, the standard deviation on the whole measurement range (0.7-30 m/s) is about 1.5%.

  9. Identification and interpretation of patterns in rocket engine data: Artificial intelligence and neural network approaches

    NASA Technical Reports Server (NTRS)

    Ali, Moonis; Whitehead, Bruce; Gupta, Uday K.; Ferber, Harry

    1989-01-01

    This paper describes an expert system which is designed to perform automatic data analysis, identify anomalous events, and determine the characteristic features of these events. We have employed both artificial intelligence and neural net approaches in the design of this expert system. The artificial intelligence approach is useful because it provides (1) the use of human experts' knowledge of sensor behavior and faulty engine conditions in interpreting data; (2) the use of engine design knowledge and physical sensor locations in establishing relationships among the events of multiple sensors; (3) the use of stored analysis of past data of faulty engine conditions; and (4) the use of knowledge-based reasoning in distinguishing sensor failure from actual faults. The neural network approach appears promising because neural nets (1) can be trained on extremely noisy data and produce classifications which are more robust under noisy conditions than other classification techniques; (2) avoid the necessity of noise removal by digital filtering and therefore avoid the need to make assumptions about frequency bands or other signal characteristics of anomalous behavior; (3) can, in effect, generate their own feature detectors based on the characteristics of the sensor data used in training; and (4) are inherently parallel and therefore are potentially implementable in special-purpose parallel hardware.

  10. Visualizing microbial dechlorination processes in underground ecosystem by statistical correlation and network analysis approach.

    PubMed

    Yamazawa, Akira; Date, Yasuhiro; Ito, Keijiro; Kikuchi, Jun

    2014-03-01

    Microbial ecosystems are typified by diverse microbial interactions and competition. Consequently, the microbial networks and metabolic dynamics of bioprocesses catalyzed by these ecosystems are highly complex, and their visualization is regarded as essential to bioengineering technology and innovation. Here we describe a means of visualizing the variants in a microbial community and their metabolic profiles. The approach enables previously unidentified bacterial functions in the ecosystems to be elucidated. We investigated the anaerobic bioremediation of chlorinated ethene in a soil column experiment as a case study. Microbial community and dechlorination profiles in the ecosystem were evaluated by denaturing gradient gel electrophoresis (DGGE) fingerprinting and gas chromatography, respectively. Dechlorination profiles were obtained from changes in dechlorination by microbial community (evaluated by data mining methods). Individual microbes were then associated with their dechlorination profiles by heterogenous correlation analysis. Our correlation-based visualization approach enables deduction of the roles and functions of bacteria in the dechlorination of chlorinated ethenes. Because it estimates functions and relationships between unidentified microbes and metabolites in microbial ecosystems, this approach is proposed as a control-logic tool by which to understand complex microbial processes. PMID:24095212

  11. Bernstein copula approach to model direction-length dependency for 2D discrete fracture network simulation

    NASA Astrophysics Data System (ADS)

    Mendoza-Torres, F.; Diaz-Viera, M. A.

    2015-12-01

    In many natural fractured porous media, such as aquifers, soils, oil and geothermal reservoirs, fractures play a crucial role in their flow and transport properties. An approach that has recently gained popularity for modeling fracture systems is the Discrete Fracture Network (DFN) model. This approach consists in applying a stochastic boolean simulation method, also known as object simulation method, where fractures are represented as simplified geometric objects (line segments in 2D and polygons in 3D). One of the shortcomings of this approach is that it usually does not consider the dependency relationships that may exist between the geometric properties of fractures (direction, length, aperture, etc), that is, each property is simulated independently. In this work a method for modeling such dependencies by copula theory is introduced. In particular, a nonparametric model using Bernstein copulas for direction-length fracture dependency in 2D is presented. The application of this method is illustrated in a case study for a fractured rock sample from a carbonate reservoir outcrop.

  12. FK-DLR properties of a quantum multi-type Bose-gas with a repulsive interaction

    NASA Astrophysics Data System (ADS)

    Suhov, Y.; Stuhl, I.

    2014-08-01

    The paper extends earlier results from Suhov and Kelbert ["FK-DLR states of a quantum Bose-gas with a hardcore interaction," arXiv:1304.0782] and Suhov et al. ["Shift-invariance for FK-DLR states of a 2D quantum Bose-gas," arXiv:1304.4177] about infinite-volume quantum bosonic states (FK-DLR states) to the case of multi-type particles with non-negative interactions. (An example is a quantum Widom-Rowlinson model.) Following the strategy from Suhov and Kelbert and Suhov et al., we establish that, for the values of fugacity z ∈ (0, 1) and inverse temperature β > 0, finite-volume Gibbs states form a compact family in the thermodynamic limit. Next, in dimension two we show that any limit-point state (an FK-DLR state in the terminology adopted in Suhov and Kelbert and Suhov et al.) is translation-invariant.

  13. dNSP: a biologically inspired dynamic Neural network approach to Signal Processing.

    PubMed

    Cano-Izquierdo, José Manuel; Ibarrola, Julio; Pinzolas, Miguel; Almonacid, Miguel

    2008-09-01

    The arriving order of data is one of the intrinsic properties of a signal. Therefore, techniques dealing with this temporal relation are required for identification and signal processing tasks. To perform a classification of the signal according with its temporal characteristics, it would be useful to find a feature vector in which the temporal attributes were embedded. The correlation and power density spectrum functions are suitable tools to manage this issue. These functions are usually defined with statistical formulation. On the other hand, in biology there can be found numerous processes in which signals are processed to give a feature vector; for example, the processing of sound by the auditory system. In this work, the dNSP (dynamic Neural Signal Processing) architecture is proposed. This architecture allows representing a time-varying signal by a spatial (thus statical) vector. Inspired by the aforementioned biological processes, the dNSP performs frequency decomposition using an analogical parallel algorithm carried out by simple processing units. The architecture has been developed under the paradigm of a multilayer neural network, where the different layers are composed by units whose activation functions have been extracted from the theory of Neural Dynamic [Grossberg, S. (1988). Nonlinear neural networks principles, mechanisms and architectures. Neural Networks, 1, 17-61]. A theoretical study of the behavior of the dynamic equations of the units and their relationship with some statistical functions allows establishing a parallelism between the unit activations and correlation and power density spectrum functions. To test the capabilities of the proposed approach, several testbeds have been employed, i.e. the frequencial study of mathematical functions. As a possible application of the architecture, a highly interesting problem in the field of automatic control is addressed: the recognition of a controlled DC motor operating state. PMID:18579344

  14. Steady state approach to model gene regulatory networks--simulation of microarray experiments.

    PubMed

    Rawool, Subodh B; Venkatesh, K V

    2007-01-01

    Genetic regulatory networks (GRN) represent complex interactions between genes brought about through proteins that they code for. Quantification of expression levels in GRN either through experiments or theoretical modeling is a challenging task. Recently, microarray experiments have gained importance in evaluating GRN at the genome level. Microarray experiments yield log fold change in mRNA abundance which is helpful in deciphering connectivity in GRN. Current approaches such as data mining, Boolean or Bayesian modeling and combined use of expression and location data are useful in analyzing microarray data. However, these methodologies lack underlying mechanistic details present in GRN. We present here a steady state gene expression simulator (SSGES) which sets up steady state equations and simulates the response for a given network structure of a GRN. SSGES includes mechanistic details such as stoichiometry, protein-DNA and protein-protein interactions, translocation of regulatory proteins and autoregulation. SSGES can be used to simulate the response of a GRN in terms of fractional transcription and protein expression. SSGES can also be used to generate log fold change in mRNA abundance and protein expression implying that it is useful to simulate microarray type experiments. We have demonstrated these capabilities of SSGES by modeling the steady state response of GAL regulatory system in Saccharomyces cerevisiae. We have demonstrated that the predicted data qualitatively matched the microarray data obtained experimentally by Ideker et al. [Ideker, T., Thorsson, V., Ranish, J.A., Christmas, R., Buhler, J., Eng, J.K., Bumgarner, R., Goodlett, D.R., Aebersold, R., Hood, L., 2001. Integrated genomic and proteomic analyses of a systematically perturbed metabolic network. Science 292, 929-934]. SSGES is available from authors upon request.

  15. A methodological approach to the analysis of egocentric social networks in public health research: a practical example

    PubMed Central

    Zaletel-Kragelj, Lijana

    2016-01-01

    Abstract Introduction Research on social networks in public health focuses on how social structures and relationships influence health and health-related behaviour. While the sociocentric approach is used to study complete social networks, the egocentric approach is gaining popularity because of its focus on individuals, groups and communities. Methods One of the participants of the healthy lifestyle health education workshop ‘I’m moving’, included in the study of social support for exercise was randomly selected. The participant was denoted as the ego and members of her/his social network as the alteri. Data were collected by personal interviews using a self-made questionnaire. Numerical methods and computer programmes for the analysis of social networks were used for the demonstration of analysis. Results The size, composition and structure of the egocentric social network were obtained by a numerical analysis. The analysis of composition included homophily and homogeneity. Moreover, the analysis of the structure included the degree of the egocentric network, the strength of the ego-alter ties and the average strength of ties. Visualisation of the network was performed by three freely available computer programmes, namely: Egonet.QF, E-net and Pajek. The computer programmes were described and compared by their usefulness. Conclusion Both numerical analysis and visualisation have their benefits. The decision what approach to use is depending on the purpose of the social network analysis. While the numerical analysis can be used in large-scale population-based studies, visualisation of personal networks can help health professionals at creating, performing and evaluation of preventive programmes, especially if focused on behaviour change. PMID:27703548

  16. A Novel Wearable Sensor-Based Human Activity Recognition Approach Using Artificial Hydrocarbon Networks

    PubMed Central

    Ponce, Hiram; Martínez-Villaseñor, María de Lourdes; Miralles-Pechuán, Luis

    2016-01-01

    Human activity recognition has gained more interest in several research communities given that understanding user activities and behavior helps to deliver proactive and personalized services. There are many examples of health systems improved by human activity recognition. Nevertheless, the human activity recognition classification process is not an easy task. Different types of noise in wearable sensors data frequently hamper the human activity recognition classification process. In order to develop a successful activity recognition system, it is necessary to use stable and robust machine learning techniques capable of dealing with noisy data. In this paper, we presented the artificial hydrocarbon networks (AHN) technique to the human activity recognition community. Our artificial hydrocarbon networks novel approach is suitable for physical activity recognition, noise tolerance of corrupted data sensors and robust in terms of different issues on data sensors. We proved that the AHN classifier is very competitive for physical activity recognition and is very robust in comparison with other well-known machine learning methods. PMID:27399696

  17. A Scalable Permutation Approach Reveals Replication and Preservation Patterns of Network Modules in Large Datasets.

    PubMed

    Ritchie, Scott C; Watts, Stephen; Fearnley, Liam G; Holt, Kathryn E; Abraham, Gad; Inouye, Michael

    2016-07-01

    Network modules-topologically distinct groups of edges and nodes-that are preserved across datasets can reveal common features of organisms, tissues, cell types, and molecules. Many statistics to identify such modules have been developed, but testing their significance requires heuristics. Here, we demonstrate that current methods for assessing module preservation are systematically biased and produce skewed p values. We introduce NetRep, a rapid and computationally efficient method that uses a permutation approach to score module preservation without assuming data are normally distributed. NetRep produces unbiased p values and can distinguish between true and false positives during multiple hypothesis testing. We use NetRep to quantify preservation of gene coexpression modules across murine brain, liver, adipose, and muscle tissues. Complex patterns of multi-tissue preservation were revealed, including a liver-derived housekeeping module that displayed adipose- and muscle-specific association with body weight. Finally, we demonstrate the broader applicability of NetRep by quantifying preservation of bacterial networks in gut microbiota between men and women. PMID:27467248

  18. Assessment of successful smoking cessation by psychological factors using the Bayesian network approach.

    PubMed

    Yang, Xiaorong; Li, Suyun; Pan, Lulu; Wang, Qiang; Li, Huijie; Han, Mingkui; Zhang, Nan; Jiang, Fan; Jia, Chongqi

    2016-07-01

    The association between psychological factors and smoking cessation is complicated and inconsistent in published researches, and the joint effect of psychological factors on smoking cessation is unclear. This study explored how psychological factors jointly affect the success of smoking cessation using a Bayesian network approach. A community-based case control study was designed with 642 adult male successful smoking quitters as the cases, and 700 adult male failed smoking quitters as the controls. General self-efficacy (GSE), trait coping style (positive-trait coping style (PTCS) and negative-trait coping style (NTCS)) and self-rating anxiety (SA) were evaluated by GSE Scale, Trait Coping Style Questionnaire and SA Scale, respectively. Bayesian network was applied to evaluate the relationship between psychological factors and successful smoking cessation. The local conditional probability table of smoking cessation indicated that different joint conditions of psychological factors led to different outcomes for smoking cessation. Among smokers with high PTCS, high NTCS and low SA, only 36.40% successfully quitted smoking. However, among smokers with low pack-years of smoking, high GSE, high PTCS and high SA, 63.64% successfully quitted smoking. Our study indicates psychological factors jointly influence smoking cessation outcome. According to different joint situations, different solutions should be developed to control tobacco in practical intervention.

  19. Information theoretic approach using neural network for determining radiometer observations from radar and vice versa

    NASA Astrophysics Data System (ADS)

    Kannan, Srinivasa Ramanujam; Chandrasekar, V.

    2016-05-01

    Even though both the rain measuring instruments, radar and radiometer onboard the TRMM observe the same rain scenes, they both are fundamentally different instruments. Radar is an active instrument and measures backscatter component from vertical rain structure; whereas radiometer is a passive instrument that obtains integrated observation of full depth of the cloud and rain structure. Further, their spatial resolutions on ground are different. Nevertheless, both the instruments are observing the same rain scene and retrieve three dimensional rainfall products. Hence it is only natural to seek answer to the question, what type of information about radiometric observations can be directly retrieved from radar observations. While there are several ways to answer this question, an informational theoretic approach using neural networks has been described in the present work to find if radiometer observations can be predicted from radar observations. A database of TMI brightness temperature and collocated TRMM vertical attenuation corrected reflectivity factor from the year 2012 was considered. The entire database is further classified according to surface type. Separate neural networks were trained for land and ocean and the results are presented.

  20. Inverse modelling of air quality data through a neural network approach

    NASA Astrophysics Data System (ADS)

    Russo, A.; Soares, A.; Trigo, R. M.; Pereira, M. J.

    2009-04-01

    Air quality is usually driven by a complex combination of factors where meteorology, physical obstacles and interaction between pollutants play significant roles. Considering the characteristics of the atmospheric circulation and also the residence times of certain pollutants in the atmosphere, air pollution is, nowadays, considered to be a global problem that affects everyone. As a result, a generalized and growing interest on air quality issues led to research intensification and publication of several articles with quite different levels of scientific depth. The main objective of this work is to produce an air quality model which allows forecasting critical concentration episodes of a certain pollutant by means of neural network modelling. In this paper, we describe the development of a neural network tool to forecast the daily average NO2 concentrations in Lisbon, Portugal, one day ahead. This research is based upon measurements from 22 air quality monitoring stations during the period 2001-2005. The analysis revealed that the most significant variable in predicting NO2 daily concentration is the previous day value of NO2 concentration followed by the 5a.m. NO2 concentration. This approach shows to be very promising for urban air quality characterization, allowing further developments in order to produce an integrated air quality and health surveillance/monitoring system in the area of Lisbon.

  1. Cluster Analysis of Weighted Bipartite Networks: A New Copula-Based Approach

    PubMed Central

    Chessa, Alessandro; Crimaldi, Irene; Riccaboni, Massimo; Trapin, Luca

    2014-01-01

    In this work we are interested in identifying clusters of “positional equivalent” actors, i.e. actors who play a similar role in a system. In particular, we analyze weighted bipartite networks that describes the relationships between actors on one side and features or traits on the other, together with the intensity level to which actors show their features. We develop a methodological approach that takes into account the underlying multivariate dependence among groups of actors. The idea is that positions in a network could be defined on the basis of the similar intensity levels that the actors exhibit in expressing some features, instead of just considering relationships that actors hold with each others. Moreover, we propose a new clustering procedure that exploits the potentiality of copula functions, a mathematical instrument for the modelization of the stochastic dependence structure. Our clustering algorithm can be applied both to binary and real-valued matrices. We validate it with simulations and applications to real-world data. PMID:25303095

  2. A network-driven approach for genome-wide association mapping

    PubMed Central

    Lee, Seunghak; Kong, Soonho; Xing, Eric P.

    2016-01-01

    Motivation: It remains a challenge to detect associations between genotypes and phenotypes because of insufficient sample sizes and complex underlying mechanisms involved in associations. Fortunately, it is becoming more feasible to obtain gene expression data in addition to genotypes and phenotypes, giving us new opportunities to detect true genotype–phenotype associations while unveiling their association mechanisms. Results: In this article, we propose a novel method, NETAM, that accurately detects associations between SNPs and phenotypes, as well as gene traits involved in such associations. We take a network-driven approach: NETAM first constructs an association network, where nodes represent SNPs, gene traits or phenotypes, and edges represent the strength of association between two nodes. NETAM assigns a score to each path from an SNP to a phenotype, and then identifies significant paths based on the scores. In our simulation study, we show that NETAM finds significantly more phenotype-associated SNPs than traditional genotype–phenotype association analysis under false positive control, taking advantage of gene expression data. Furthermore, we applied NETAM on late-onset Alzheimer’s disease data and identified 477 significant path associations, among which we analyzed paths related to beta-amyloid, estrogen, and nicotine pathways. We also provide hypothetical biological pathways to explain our findings. Availability and implementation: Software is available at http://www.sailing.cs.cmu.edu/. Contact: epxing@cs.cmu.edu PMID:27307613

  3. Neural network approach to quantum-chemistry data: Accurate prediction of density functional theory energies

    NASA Astrophysics Data System (ADS)

    Balabin, Roman M.; Lomakina, Ekaterina I.

    2009-08-01

    Artificial neural network (ANN) approach has been applied to estimate the density functional theory (DFT) energy with large basis set using lower-level energy values and molecular descriptors. A total of 208 different molecules were used for the ANN training, cross validation, and testing by applying BLYP, B3LYP, and BMK density functionals. Hartree-Fock results were reported for comparison. Furthermore, constitutional molecular descriptor (CD) and quantum-chemical molecular descriptor (QD) were used for building the calibration model. The neural network structure optimization, leading to four to five hidden neurons, was also carried out. The usage of several low-level energy values was found to greatly reduce the prediction error. An expected error, mean absolute deviation, for ANN approximation to DFT energies was 0.6±0.2 kcal mol-1. In addition, the comparison of the different density functionals with the basis sets and the comparison of multiple linear regression results were also provided. The CDs were found to overcome limitation of the QD. Furthermore, the effective ANN model for DFT/6-311G(3df,3pd) and DFT/6-311G(2df,2pd) energy estimation was developed, and the benchmark results were provided.

  4. A Computational Approach towards a Gene Regulatory Network for the Developing Nematostella vectensis Gut

    PubMed Central

    Botman, Daniel; Röttinger, Eric; Martindale, Mark Q.; de Jong, Johann; Kaandorp, Jaap A.

    2014-01-01

    Background The starlet sea anemone Nematostella vectensis is a diploblastic cnidarian that expresses a set of conserved genes for gut formation during its early development. During the last decade, the spatial distribution of many of these genes has been visualized with RNA hybridization or protein immunolocalization techniques. However, due to N. vectensis' curved and changing morphology, quantification of these spatial data is problematic. A method is developed for two-dimensional gene expression quantification, which enables a numerical analysis and dynamic modeling of these spatial patterns. Methods/Result In this work, first standardized gene expression profiles are generated from publicly available N. vectensis embryo images that display mRNA and/or protein distributions. Then, genes expressed during gut formation are clustered based on their expression profiles, and further grouped based on temporal appearance of their gene products in embryonic development. Representative expression profiles are manually selected from these clusters, and used as input for a simulation-based optimization scheme. This scheme iteratively fits simulated profiles to the selected profiles, leading to an optimized estimation of the model parameters. Finally, a preliminary gene regulatory network is derived from the optimized model parameters. Outlook While the focus of this study is N. vectensis, the approach outlined here is suitable for inferring gene regulatory networks in the embryonic development of any animal, thus allowing to comparatively study gene regulation of gut formation in silico across various species. PMID:25076223

  5. A Scalable Permutation Approach Reveals Replication and Preservation Patterns of Network Modules in Large Datasets.

    PubMed

    Ritchie, Scott C; Watts, Stephen; Fearnley, Liam G; Holt, Kathryn E; Abraham, Gad; Inouye, Michael

    2016-07-01

    Network modules-topologically distinct groups of edges and nodes-that are preserved across datasets can reveal common features of organisms, tissues, cell types, and molecules. Many statistics to identify such modules have been developed, but testing their significance requires heuristics. Here, we demonstrate that current methods for assessing module preservation are systematically biased and produce skewed p values. We introduce NetRep, a rapid and computationally efficient method that uses a permutation approach to score module preservation without assuming data are normally distributed. NetRep produces unbiased p values and can distinguish between true and false positives during multiple hypothesis testing. We use NetRep to quantify preservation of gene coexpression modules across murine brain, liver, adipose, and muscle tissues. Complex patterns of multi-tissue preservation were revealed, including a liver-derived housekeeping module that displayed adipose- and muscle-specific association with body weight. Finally, we demonstrate the broader applicability of NetRep by quantifying preservation of bacterial networks in gut microbiota between men and women.

  6. Networks of triboelectric nanogenerators for harvesting water wave energy: a potential approach toward blue energy.

    PubMed

    Chen, Jun; Yang, Jin; Li, Zhaoling; Fan, Xing; Zi, Yunlong; Jing, Qingshen; Guo, Hengyu; Wen, Zhen; Pradel, Ken C; Niu, Simiao; Wang, Zhong Lin

    2015-03-24

    With 70% of the earth's surface covered with water, wave energy is abundant and has the potential to be one of the most environmentally benign forms of electric energy. However, owing to lack of effective technology, water wave energy harvesting is almost unexplored as an energy source. Here, we report a network design made of triboelectric nanogenerators (TENGs) for large-scale harvesting of kinetic water energy. Relying on surface charging effect between the conventional polymers and very thin layer of metal as electrodes for each TENG, the TENG networks (TENG-NW) that naturally float on the water surface convert the slow, random, and high-force oscillatory wave energy into electricity. On the basis of the measured output of a single TENG, the TENG-NW is expected to give an average power output of 1.15 MW from 1 km(2) surface area. Given the compelling features, such as being lightweight, extremely cost-effective, environmentally friendly, easily implemented, and capable of floating on the water surface, the TENG-NW renders an innovative and effective approach toward large-scale blue energy harvesting from the ocean. PMID:25719956

  7. Networks of triboelectric nanogenerators for harvesting water wave energy: a potential approach toward blue energy.

    PubMed

    Chen, Jun; Yang, Jin; Li, Zhaoling; Fan, Xing; Zi, Yunlong; Jing, Qingshen; Guo, Hengyu; Wen, Zhen; Pradel, Ken C; Niu, Simiao; Wang, Zhong Lin

    2015-03-24

    With 70% of the earth's surface covered with water, wave energy is abundant and has the potential to be one of the most environmentally benign forms of electric energy. However, owing to lack of effective technology, water wave energy harvesting is almost unexplored as an energy source. Here, we report a network design made of triboelectric nanogenerators (TENGs) for large-scale harvesting of kinetic water energy. Relying on surface charging effect between the conventional polymers and very thin layer of metal as electrodes for each TENG, the TENG networks (TENG-NW) that naturally float on the water surface convert the slow, random, and high-force oscillatory wave energy into electricity. On the basis of the measured output of a single TENG, the TENG-NW is expected to give an average power output of 1.15 MW from 1 km(2) surface area. Given the compelling features, such as being lightweight, extremely cost-effective, environmentally friendly, easily implemented, and capable of floating on the water surface, the TENG-NW renders an innovative and effective approach toward large-scale blue energy harvesting from the ocean.

  8. Mean field game theoretic approach for security in mobile ad-hoc networks

    NASA Astrophysics Data System (ADS)

    Wang, Yanwei; Tang, Helen; Yu, F. Richard; Huang, Minyi

    2013-05-01

    Game theory can provide a useful tool to study the security problem in mobile ad hoc networks (MANETs). Most existing work on applying game theories to security only considers two players in the security game model: an attacker and a defender. While this assumption is valid for a network with centralized administration, it may not be realistic in MANETs, where centralized administration is not available. Consequently, each individual node in a MANET should be treated separately in the security game model. In this paper, using recent advances in mean field game theory, we propose a novel game theoretic approach for security in MANETs. Mean field game theory provides a powerful mathematical tool for problems with a large number of players. Since security defence mechanisms consume precious system resources (e.g., energy), the proposed scheme considers not only the security requirement of MANETs but also the system resources. In addition, each node only needs to know its own state information and the aggregate effect of the other nodes in the MANET. Therefore, the proposed scheme is a fully distributed scheme. Simulation results are presented to illustrate the effectiveness of the proposed scheme.

  9. A Novel Analytical Approach to Pulsatile Blood Flow in the Arterial Network.

    PubMed

    Flores, Joaquín; Alastruey, Jordi; Corvera Poiré, Eugenia

    2016-10-01

    Haemodynamic simulations using one-dimensional (1-D) computational models exhibit many of the features of the systemic circulation under normal and diseased conditions. We propose a novel linear 1-D dynamical theory of blood flow in networks of flexible vessels that is based on a generalized Darcy's model and for which a full analytical solution exists in frequency domain. We assess the accuracy of this formulation in a series of benchmark test cases for which computational 1-D and 3-D solutions are available. Accordingly, we calculate blood flow and pressure waves, and velocity profiles in the human common carotid artery, upper thoracic aorta, aortic bifurcation, and a 20-artery model of the aorta and its larger branches. Our analytical solution is in good agreement with the available solutions and reproduces the main features of pulse waveforms in networks of large arteries under normal physiological conditions. Our model reduces computational time and provides a new approach for studying arterial pulse wave mechanics; e.g.,  the analyticity of our model allows for a direct identification of the role played by physical properties of the cardiovascular system on the pressure waves.

  10. A Novel Wearable Sensor-Based Human Activity Recognition Approach Using Artificial Hydrocarbon Networks.

    PubMed

    Ponce, Hiram; Martínez-Villaseñor, María de Lourdes; Miralles-Pechuán, Luis

    2016-01-01

    Human activity recognition has gained more interest in several research communities given that understanding user activities and behavior helps to deliver proactive and personalized services. There are many examples of health systems improved by human activity recognition. Nevertheless, the human activity recognition classification process is not an easy task. Different types of noise in wearable sensors data frequently hamper the human activity recognition classification process. In order to develop a successful activity recognition system, it is necessary to use stable and robust machine learning techniques capable of dealing with noisy data. In this paper, we presented the artificial hydrocarbon networks (AHN) technique to the human activity recognition community. Our artificial hydrocarbon networks novel approach is suitable for physical activity recognition, noise tolerance of corrupted data sensors and robust in terms of different issues on data sensors. We proved that the AHN classifier is very competitive for physical activity recognition and is very robust in comparison with other well-known machine learning methods. PMID:27399696

  11. Combined imaging and neural-network-based approach in solid waste sorting

    NASA Astrophysics Data System (ADS)

    Alunni, Stefano; Bonifazi, Giuseppe; de Carli, Alessandro; Massacci, Paolo

    2002-04-01

    Solid waste recycling is more and more increasing according to the need to realize dismantled material recovery and to reduce overall environmental pollution. When a recycling strategy is applied sorting strategies have to be developed and implemented. Such an approach ca be considered as the second logical step of the process that is, after that the attributes (physical, chemical, morphological, morphometrical, textural, etc.) of the materials resulting from classical processing (comminution, classification, separation, etc.) are detected and numerically modeled. The resulting feature vector need to be handled by a software architecture performing the required recognition/classification procedure and defining the quality of the investigated products. From the results further feed-back or feed-forward control strategies can be applied in order to improve equipment or processing architectures performances. In this paper are analyzed and described neural network based sorting strategies applied with reference to fluff (light fraction of the materials resulting from car dismantling) recognition.

  12. QML-AiNet: An immune network approach to learning qualitative differential equation models

    PubMed Central

    Pang, Wei; Coghill, George M.

    2015-01-01

    In this paper, we explore the application of Opt-AiNet, an immune network approach for search and optimisation problems, to learning qualitative models in the form of qualitative differential equations. The Opt-AiNet algorithm is adapted to qualitative model learning problems, resulting in the proposed system QML-AiNet. The potential of QML-AiNet to address the scalability and multimodal search space issues of qualitative model learning has been investigated. More importantly, to further improve the efficiency of QML-AiNet, we also modify the mutation operator according to the features of discrete qualitative model space. Experimental results show that the performance of QML-AiNet is comparable to QML-CLONALG, a QML system using the clonal selection algorithm (CLONALG). More importantly, QML-AiNet with the modified mutation operator can significantly improve the scalability of QML and is much more efficient than QML-CLONALG. PMID:25648212

  13. Optimizing parameters on alignment of PCL/PGA nanofibrous scaffold: An artificial neural networks approach.

    PubMed

    Paskiabi, Farnoush Asghari; Mirzaei, Esmaeil; Amani, Amir; Shokrgozar, Mohammad Ali; Saber, Reza; Faridi-Majidi, Reza

    2015-11-01

    This paper proposes an artificial neural networks approach to finding the effects of electrospinning parameters on alignment of poly(ɛ-caprolactone)/poly(glycolic acid) blend nanofibers. Four electrospinning parameters, namely total polymer concentration, working distance, drum speed and applied voltage were considered as input and the standard deviation of the angles of nanofibers, introducing fibers alignments, as the output of the model. The results demonstrated that drum speed and applied voltage are two critical factors influencing nanofibers alignment, however their effect are entirely interdependent. Their effects also are not independent of other electrospinning parameters. In obtaining aligned electrospun nanofibers, the concentration and working distance can also be effective. In vitro cell culture study on random and aligned nanofibers showed directional growth of cells on aligned fibers.

  14. Ultrasound Image Discrimination between Benign and Malignant Adnexal Masses Based on a Neural Network Approach.

    PubMed

    Aramendía-Vidaurreta, Verónica; Cabeza, Rafael; Villanueva, Arantxa; Navallas, Javier; Alcázar, Juan Luis

    2016-03-01

    The discrimination between benign and malignant adnexal masses in ultrasound images represents one of the most challenging problems in gynecologic practice. In the study described here, a new method for automatic discrimination of adnexal masses based on a neural networks approach was tested. The proposed method first calculates seven different types of characteristics (local binary pattern, fractal dimension, entropy, invariant moments, gray level co-occurrence matrix, law texture energy and Gabor wavelet) from ultrasound images of the ovary, from which several features are extracted and collected together with the clinical patient age. The proposed technique was validated using 106 benign and 39 malignant images obtained from 145 patients, corresponding to its probability of appearance in general population. On evaluation of the classifier, an accuracy of 98.78%, sensitivity of 98.50%, specificity of 98.90% and area under the curve of 0.997 were calculated.

  15. The Appeal to Expert Opinion: Quantitative Support for a Bayesian Network Approach.

    PubMed

    Harris, Adam J L; Hahn, Ulrike; Madsen, Jens K; Hsu, Anne S

    2016-08-01

    The appeal to expert opinion is an argument form that uses the verdict of an expert to support a position or hypothesis. A previous scheme-based treatment of the argument form is formalized within a Bayesian network that is able to capture the critical aspects of the argument form, including the central considerations of the expert's expertise and trustworthiness. We propose this as an appropriate normative framework for the argument form, enabling the development and testing of quantitative predictions as to how people evaluate this argument, suggesting that such an approach might be beneficial to argumentation research generally. We subsequently present two experiments as an example of the potential for future research in this vein, demonstrating that participants' quantitative ratings of the convincingness of a proposition that has been supported with an appeal to expert opinion were broadly consistent with the predictions of the Bayesian model.

  16. International business cycle synchronization since the 1870s: Evidence from a novel network approach

    NASA Astrophysics Data System (ADS)

    Antonakakis, Nikolaos; Gogas, Periklis; Papadimitriou, Theophilos; Sarantitis, Georgios Antonios

    2016-04-01

    In this study, we examine the issue of business cycle synchronization from a historical perspective in 27 developed and developing countries. Based on a novel complex network approach, the Threshold-Minimum Dominating Set (T-MDS), our results reveal heterogeneous patterns of international business cycle synchronization during fundamental globalization periods since the 1870s. In particular, the proposed methodology reveals that worldwide business cycles de-coupled during the Gold Standard, though they were synchronized during the Great Depression. The Bretton Woods era was associated with a lower degree of synchronization as compared to that during the Great Depression, while worldwide business cycle synchronization increased to unprecedented levels during the latest period of floating exchange rates and the Great Recession.

  17. Determining location and size of medical departments in a hospital network: a multiobjective decision support approach.

    PubMed

    Stummer, Christian; Doerner, Karl; Focke, Axel; Heidenberger, Kurt

    2004-02-01

    Decisions on the location and size of medical departments in a given hospital network are prime examples of priority setting in health care, which is an issue of growing political importance. As such decisions are regularly characterized by multiple and often conflicting objectives in real-life, this paper integrates the fields of hospital planning and multiobjective decision support. The proposed two-phase solution procedure for our corresponding mathematical programming model does not require a priori preference information. Instead, it seeks efficient solutions by means of multiobjective tabu search in the first phase, while applying clustering in the second phase to allow the decision makers to interactively explore the solution space until the "best" configuration is determined. The real-world applicability of our approach is illustrated through a numerical example based on hospital data from Germany. PMID:14977095

  18. Artificial neural network approach to modelling of metal contents in different types of chocolates.

    PubMed

    Podunavac-Kuzmanović, Sanja; Jevrić, Lidija; Švarc-Gajić, Jaroslava; Kovačević, Strahinja; Vasiljević, Ivana; Kecojević, Isidora; Ivanović, Evica

    2015-01-01

    The relationships between the contents of various metals in different types of chocolates were studied using chemometric approach. Chemometric analysis was based on the application of artificial neural networks (ANN). ANN was performed in order to select the significant models for predicting the metal contents. ANN equations, that represent the content of one metal as a function of the contents of other metals were established. The statistical quality of the generated mathematical models was determined by standard statistical measures and cross-validation parameters. High agreement between experimental and predicted values, obtained in the validation procedure, indicated the good quality of the models. The obtained results indicate the possibility of predicting the metal contents in different types of chocolate. PMID:25830975

  19. Leader-follower synchronisation for networked Lagrangian systems with uncertainties: a learning approach

    NASA Astrophysics Data System (ADS)

    Yang, Shiping; Xu, Jian-Xin

    2016-03-01

    This article addresses a leader-follower synchronisation problem of networked Lagrangian systems with uncertainties by an iterative learning control approach. The inherent properties of the systems are fully utilised in the controller design, and a directed acyclic graph is sufficient for communication among subsystems. The developed controller contains a proportional-plus-derivative (PD) term and two learning terms. The PD term drives the tracking error to zero, one learning term compensates for the model uncertainties, and the other one is used for disturbance rejection. It is shown that the synchronisation task can be achieved by the proposed controller, and all internal signals are either bounded or norm bounded. The theoretical results are supported by a numerical study.

  20. Positive Tensor Network Approach for Simulating Open Quantum Many-Body Systems.

    PubMed

    Werner, A H; Jaschke, D; Silvi, P; Kliesch, M; Calarco, T; Eisert, J; Montangero, S

    2016-06-10

    Open quantum many-body systems play an important role in quantum optics and condensed matter physics, and capture phenomena like transport, the interplay between Hamiltonian and incoherent dynamics, and topological order generated by dissipation. We introduce a versatile and practical method to numerically simulate one-dimensional open quantum many-body dynamics using tensor networks. It is based on representing mixed quantum states in a locally purified form, which guarantees that positivity is preserved at all times. Moreover, the approximation error is controlled with respect to the trace norm. Hence, this scheme overcomes various obstacles of the known numerical open-system evolution schemes. To exemplify the functioning of the approach, we study both stationary states and transient dissipative behavior, for various open quantum systems ranging from few to many bodies.