Extended kalman filter for estimation of parameters in nonlinear state-space models of biochemical networks.

It is system dynamics that determines the function of cells, tissues and organisms. To develop mathematical models and estimate their parameters are an essential issue for studying dynamic behaviors of biological systems which include metabolic networks, genetic regulatory networks and signal transduction pathways, under perturbation of external stimuli. In general, biological dynamic systems are partially observed. Therefore, a natural way to model dynamic biological systems is to employ nonlinear state-space equations. Although statistical methods for parameter estimation of linear models in biological dynamic systems have been developed intensively in the recent years, the estimation of both states and parameters of nonlinear dynamic systems remains a challenging task. In this report, we apply extended Kalman Filter (EKF) to the estimation of both states and parameters of nonlinear state-space models. To evaluate the performance of the EKF for parameter estimation, we apply the EKF to a simulation dataset and two real datasets: JAK-STAT signal transduction pathway and Ras/Raf/MEK/ERK signaling transduction pathways datasets. The preliminary results show that EKF can accurately estimate the parameters and predict states in nonlinear state-space equations for modeling dynamic biochemical networks.

A Cruciform Electron Donor-Acceptor Semiconductor with Solid-State Red Emission: 1D/2D Optical Waveguides and Highly Sensitive/Selective Detection of H2S Gas

In this paper, a new cruciform donor–acceptor molecule 2,2'-((5,5'-(3,7-dicyano-2,6-bis(dihexylamino)benzo[1,2-b:4,5-b']difuran-4,8-diyl)bis(thiophene-5,2-diyl))bis (methanylylidene))dimalononitrile (BDFTM) is reported. The compound exhibits both remarkable solid-state red emission and p-type semiconducting behavior. The dual functions of BDFTM are ascribed to its unique crystal structure, in which there are no intermolecular face-to-face π–π interactions, but the molecules are associated by intermolecular CN…π and H-bonding interactions. Firstly, BDFTM exhibits aggregation-induced emission; that is, in solution, it is almost non-emissive but becomes significantly fluorescent after aggregation. The emission quantum yield and average lifetime are measured to be 0.16 and 2.02 ns, respectively. Crystalline microrods and microplates of BDFTM show typical optical waveguiding behaviors with a rather low optical loss coefficient. Moreover, microplates of BDFTM can function as planar optical microcavities which can confine the emitted photons by the reflection at the crystal edges. Thin films show an air-stable p-type semiconducting property with a hole mobility up to 0.0015 cm2V−1s−1. Notably, an OFET with a thin film of BDFTM is successfully utilized for highly sensitive and selective detection of H2S gas (down to ppb levels).

Azacyclic FTY720 Analogues That Limit Nutrient Transporter Expression but Lack S1P Receptor Activity and Negative Chronotropic Effects Offer a Novel and Effective Strategy to Kill Cancer Cells in Vivo

FTY720 sequesters lymphocytes in secondary lymphoid organs through effects on sphingosine-1-phosphate (S1P) receptors. However, at higher doses than are required for immunosuppression, FTY720 also functions as an anticancer agent in multiple animal models. Our published work indicates that the anticancer effects of FTY720 do not depend on actions at S1P receptors but instead stem from FTY720s ability to restrict access to extracellular nutrients by down-regulating nutrient transporter proteins. This result was significant because S1P receptor activation is responsible for FTY720s dose-limiting toxicity, bradycardia, that prevents its use in cancer patients. Here, we describe diastereomeric and enantiomeric 3- and 4-C-aryl 2-hydroxymethyl pyrrolidines that are more active than the previously known analogues. Of importance is that these compounds fail to activate S1P1 or S1P3 receptors in vivo but retain inhibitory effects on nutrient transporter proteins and anticancer activity in solid tumor xenograft models. Our studies reaffirm that the anticancer activity of FTY720 does not depend upon S1P receptor activation and uphold the promise of using S1P receptor-inactive azacyclic FTY720 analogues in human cancer patients.

Multiple functions of gingival and mucoperiosteal fibroblasts in oral wound healing and repair

Fibroblasts are cells of mesenchymal origin. They are responsible for the production of most extracellular matrix in connective tissues and are essential for wound healing and repair. In recent years, it has become clear that fibroblasts from different tissues have various distinct traits. Moreover, wounds in the oral cavity heal under very special environmental conditions compared with skin wounds. Here, we reviewed the current literature on the various interconnected functions of gingival and mucoperiosteal fibroblasts during the repair of oral wounds. The MEDLINE database was searched with the following terms: (gingival OR mucoperiosteal) AND fibroblast AND (wound healing OR repair). The data gathered were used to compare oral fibroblasts with fibroblasts from other tissues in terms of their regulation and function during wound healing. Specifically, we sought answers to the following questions: (i) what is the role of oral fibroblasts in the inflammatory response in acute wounds; (ii) how do growth factors control the function of oral fibroblasts during wound healing; (iii) how do oral fibroblasts produce, remodel and interact with extracellular matrix in healing wounds; (iv) how do oral fibroblasts respond to mechanical stress; and (v) how does aging affect the fetal-like responses and functions of oral fibroblasts? The current state of research indicates that oral fibroblasts possess unique characteristics and tightly controlled specific functions in wound healing and repair. This information is essential for developing new strategies to control the intraoral wound-healing processes of the individual patient.

Compact Singlet S Helium Wave functions(corrected)

This is a corrected version of the Phys. Rev. A 74,14501 (2006) article. The result is improved slightly from that in the original paper.

NONLINEAR TIME SERIES/SYSTEM ANALYSIS (STATE-SPACE, DYNAMICS, INTERVENTION, RESILIENCE, KALMAN)

A discussion of nonlinear dynamics, demonstrated by the familiar automobile, is followed by the development of a systematic method of analysis of a possibly nonlinear time series using difference equations in the general state-space format. This format allows recursive state-dependent parameter estimation after each observation thereby revealing the dynamics inherent in the system in combination with random external perturbations.^ The one-step ahead prediction errors at each time period, transformed to have constant variance, and the estimated parametric sequences provide the information to (1) formally test whether time series observations y(,t) are some linear function of random errors (ELEM)(,s), for some t and s, or whether the series would more appropriately be described by a nonlinear model such as bilinear, exponential, threshold, etc., (2) formally test whether a statistically significant change has occurred in structure/level either historically or as it occurs, (3) forecast nonlinear system with a new and innovative (but very old numerical) technique utilizing rational functions to extrapolate individual parameters as smooth functions of time which are then combined to obtain the forecast of y and (4) suggest a measure of resilience, i.e. how much perturbation a structure/level can tolerate, whether internal or external to the system, and remain statistically unchanged. Although similar to one-step control, this provides a less rigid way to think about changes affecting social systems.^ Applications consisting of the analysis of some familiar and some simulated series demonstrate the procedure. Empirical results suggest that this state-space or modified augmented Kalman filter may provide interesting ways to identify particular kinds of nonlinearities as they occur in structural change via the state trajectory.^ A computational flow-chart detailing computations and software input and output is provided in the body of the text. IBM Advanced BASIC program listings to accomplish most of the analysis are provided in the appendix. ^

Asymptotically Optimum Estimation of a Probability in Inverse Binomial Sampling under General Loss Functions

The optimum quality that can be asymptotically achieved in the estimation of a probability p using inverse binomial sampling is addressed. A general definition of quality is used in terms of the risk associated with a loss function that satisfies certain assumptions. It is shown that the limit superior of the risk for p asymptotically small has a minimum over all (possibly randomized) estimators. This minimum is achieved by certain non-randomized estimators. The model includes commonly used quality criteria as particular cases. Applications to the non-asymptotic regime are discussed considering specific loss functions, for which minimax estimators are derived.

Equation of state for hot dense matter using a relativistic screened hydrogenic model

The study of matter under conditions of high density, pressure, and temperature is a valuable subject for inertial confinement fusion (ICF), astrophysical phenomena, high-power laser interaction with matter, etc. In all these cases, matter is heated and compressed by strong shocks to high pressures and temperatures, becomes partially or completely ionized via thermal or pressure ionization, and is in the form of dense plasma. The thermodynamics and the hydrodynamics of hot dense plasmas cannot be predicted without the knowledge of the equation of state (EOS) that describes how a material reacts to pressure and how much energy is involved. Therefore, the equation of state often takes the form of pressure and energy as functions of density and temperature. Furthermore, EOS data must be obtained in a timely manner in order to be useful as input in hydrodynamic codes. By this reason, the use of fast, robust and reasonably accurate atomic models, is necessary for computing the EOS of a material.

SMA-Based Muscle-Like Actuation in Biologically Inspired Robots: A State of the Art Review

New actuation technology in functional or "smart" materials has opened new horizons in robotics actuation systems. Materials such as piezo-electric fiber composites, electro-active polymers and shape memory alloys (SMA) are being investigated as promising alternatives to standard servomotor technology [52]. This paper focuses on the use of SMAs for building muscle-like actuators. SMAs are extremely cheap, easily available commercially and have the advantage of working at low voltages. The use of SMA provides a very interesting alternative to the mechanisms used by conventional actuators. SMAs allow to drastically reduce the size, weight and complexity of robotic systems. In fact, their large force-weight ratio, large life cycles, negligible volume, sensing capability and noise-free operation make possible the use of this technology for building a new class of actuation devices. Nonetheless, high power consumption and low bandwidth limit this technology for certain kind of applications. This presents a challenge that must be addressed from both materials and control perspectives in order to overcome these drawbacks. Here, the latter is tackled. It has been demonstrated that suitable control strategies and proper mechanical arrangements can dramatically improve on SMA performance, mostly in terms of actuation speed and limit cycles.

Changes in resting-state functionally connected parieto-frontal networks after videogame practice

Neuroimaging studies provide evidence for organized intrinsic activity under task-free conditions. This activity serves functionally relevant brain systems supporting cognition. Here, we analyze changes in resting-state functional connectivity after videogame practice applying a test–retest design. Twenty young females were selected from a group of 100 participants tested on four standardized cognitive ability tests. The practice and control groups were carefully matched on their ability scores. The practice group played during two sessions per week across 4 weeks (16 h total) under strict supervision in the laboratory, showing systematic performance improvements in the game. A group independent component analysis (GICA) applying multisession temporal concatenation on test–retest resting-state fMRI, jointly with a dual-regression approach, was computed. Supporting the main hypothesis, the key finding reveals an increased correlated activity during rest in certain predefined resting state networks (albeit using uncorrected statistics) attributable to practice with the cognitively demanding tasks of the videogame. Observed changes were mainly concentrated on parietofrontal networks involved in heterogeneous cognitive functions.

Vector spaces of entire functions of unbounded type

Let E be an infinite dimensional complex Banach space. We prove the existence of an infinitely generated algebra, an infinite dimensional closed subspace and a dense subspace of entire functions on E whose non-zero elements are functions of unbounded type. We also show that the τδ topology on the space of all holomorphic functions cannot be obtained as a countable inductive limit of Fr´echet spaces. RESUMEN. Sea E un espacio de Banach complejo de dimensión infinita y sea H(E) el espacio de funciones holomorfas definidas en E. En el artículo se demuestra la existencia de un álgebra infinitamente generada en H(E), un subespacio vectorial en H(E) cerrado de dimensión infinita y un subespacio denso en H(E) cuyos elementos no nulos son funciones de tipo no acotado. También se demuestra que el espacio de funciones holomorfas con la topología ? no es un límite inductivo numberable de espacios de Fréchet.

A unified framework for linear function approximation of value functions in stochastic control

This paper contributes with a unified formulation that merges previ- ous analysis on the prediction of the performance ( value function ) of certain sequence of actions ( policy ) when an agent operates a Markov decision process with large state-space. When the states are represented by features and the value function is linearly approxi- mated, our analysis reveals a new relationship between two common cost functions used to obtain the optimal approximation. In addition, this analysis allows us to propose an efficient adaptive algorithm that provides an unbiased linear estimate. The performance of the pro- posed algorithm is illustrated by simulation, showing competitive results when compared with the state-of-the-art solutions.

Monte Carlo limit cycle characterization

The fixed point implementation of IIR digital filters usually leads to the appearance of zero-input limit cycles, which degrade the performance of the system. In this paper, we develop an efficient Monte Carlo algorithm to detect and characterize limit cycles in fixed-point IIR digital filters. The proposed approach considers filters formulated in the state space and is valid for any fixed point representation and quantization function. Numerical simulations on several high-order filters, where an exhaustive search is unfeasible, show the effectiveness of the proposed approach.

La implementación arquitectónica de los acristalamientos activos con agua circulante, y su contribución en edificios de consumo de energía casi nulo

La presente Tesis Doctoral evalúa la contribución de una fachada activa, constituida por acristalamientos con circulación de agua, en el rendimiento energético del edificio. Con especial énfasis en la baja afección sobre su imagen, su integración ha de favorecer la calificación del edificio con el futuro estándar de Edificio de consumo de Energía Casi Nulo (EECN). El propósito consiste en cuantificar su aportación a limitar la demanda de climatización, como solución de fachada transparente acorde a las normas de la energía del 2020. En el primer capítulo se introduce el planteamiento del problema. En el segundo capítulo se desarrollan la hipótesis y el objetivo fundamental de la investigación. Para tal fin, en el tercer capítulo, se revisa el estado del arte de la tecnología y de la investigación científica, mediante el análisis de la literatura de referencia. Se comparan patentes, prototipos, sistemas comerciales asimilables, investigaciones en curso en Universidades, y proyectos de investigación y desarrollo, sobre envolventes que incorporan acristalamientos con circulación de agua. El método experimental, expuesto en el cuarto capítulo, acomete el diseño, la fabricación y la monitorización de un prototipo expuesto, durante ciclos de ensayos, a las condiciones climáticas de Madrid. Esta fase ha permitido adquirir información precisa sobre el rendimiento del acristalamiento en cada orientación de incidencia solar, en las distintas estaciones del año. En paralelo, se aborda el desarrollo de modelos teóricos que, mediante su asimilación a soluciones multicapa caracterizadas en las herramientas de simulación EnergyPlus y IDA-ICE (IDA Indoor Climate and Energy), reproducen el efecto experimental. En el quinto capítulo se discuten los resultados experimentales y teóricos, y se analiza la respuesta del acristalamiento asociado a un determinado volumen y temperatura del agua. Se calcula la eficiencia en la captación de la radiación y, mediante la comparativa con un acristalamiento convencional, se determina la reducción de las ganancias solares y las pérdidas de energía. Se comparan el rendimiento del acristalamiento, obtenido experimentalmente, con el ofrecido por paneles solares fototérmicos disponibles en el mercado. Mediante la traslación de los resultados experimentales a casos de células de tamaño habitable, se cuantifica la afección del acristalamiento sobre el consumo en refrigeración y calefacción. Diferenciando cada caso por su composición constructiva y orientación, se extraen conclusiones sobre la reducción del gasto en climatización, en condiciones de bienestar. Posteriormente, se evalúa el ahorro de su incorporación en un recinto existente, de construcción ligera, localizado en la Escuela de Arquitectura de la Universidad Politécnica de Madrid (UPM). Mediante el planteamiento de escenarios de rehabilitación energética, se estima su compatibilidad con un sistema de climatización mediante bomba de calor y extracción geotérmica. Se describe el funcionamiento del sistema, desde la perspectiva de la operación conjunta de los acristalamientos activos e intercambio geotérmico, en nuestro clima. Mediante la parametrización de sus funciones, se estima el beneficio adicional de su integración, a partir de la mejora del rendimiento de la bomba de calor COP (Coefficient of Performance) en calefacción, y de la eficiencia EER (Energy Efficiency Ratio) en refrigeración. En el recinto de la ETSAM, se ha analizado la contribución de la fachada activa en su calificación como Edificio de Energía Casi Nula, y estudiado la rentabilidad económica del sistema. En el sexto capítulo se exponen las conclusiones de la investigación. A la fecha, el sistema supone alta inversión inicial, no obstante, genera elevada eficiencia con bajo impacto arquitectónico, reduciéndose los costes operativos, y el dimensionado de los sistemas de producción, de mayor afección sobre el edificio. Mediante la envolvente activa con suministro geotérmico no se condena la superficie de cubierta, no se ocupa volumen útil por la presencia de equipos emisores, y no se reduce la superficie o altura útil a base de reforzar los aislamientos. Tras su discusión, se considera una alternativa de valor en procesos de diseño y construcción de Edificios de Energía Casi Nulo. Se proponen líneas de futuras investigación cuyo propósito sea el conocimiento de la tecnología de los acristalamientos activos. En el último capítulo se presentan las actividades de difusión de la investigación. Adicionalmente se ha proporcionado una mejora tecnológica a las fachadas activas existentes, que ha derivado en la solicitud de una patente, actualmente en tramitación. ABSTRACT This Thesis evaluates the contribution of an active water flow glazing façade on the energy performance of buildings. Special emphasis is made on the low visual impact on its image, and the active glazing implementation has to encourage the qualification of the building with the future standard of Nearly Zero Energy Building (nZEB). The purpose is to quantify the façade system contribution to limit air conditioning demand, resulting in a transparent façade solution according to the 2020 energy legislation. An initial approach to the problem is presented in first chapter. The second chapter develops the hypothesis and the main objective of the research. To achieve this purpose, the third chapter reviews the state of the art of the technology and scientific research, through the analysis of reference literature. Patents, prototypes, assimilable commercial systems, ongoing research in other universities, and finally research and development projects incorporating active fluid flow glazing are compared. The experimental method, presented in fourth chapter, undertakes the design, manufacture and monitoring of a water flow glazing prototype exposed during test cycles to weather conditions in Madrid. This phase allowed the acquisition of accurate information on the performance of water flow glazing on each orientation of solar incidence, during different seasons. In parallel, the development of theoretical models is addressed which, through the assimilation to multilayer solutions characterized in the simulation tools EnergyPlus and IDA-Indoor Climate and Energy, reproduce the experimental effect. Fifth chapter discusses experimental and theoretical results focused to the analysis of the active glazing behavior, associated with a specific volume and water flow temperature. The efficiency on harvesting incident solar radiation is calculated, and, by comparison with a conventional glazing, the reduction of solar gains and energy losses are determined. The experimental performance of fluid flow glazing against the one offered by photothermal solar panels available on the market are compared. By translating the experimental and theoretical results to cases of full-size cells, the reduction in cooling and heating consumption achieved by active fluid glazing is quantified. The reduction of energy costs to achieve comfort conditions is calculated, differentiating each case by its whole construction composition and orientation. Subsequently, the saving of the implementation of the system on an existing lightweight construction enclosure, located in the School of Architecture at the Polytechnic University of Madrid (UPM), is then calculated. The compatibility between the active fluid flow glazing and a heat pump with geothermal heat supply system is estimated through the approach of different energy renovation scenarios. The overall system operation is described, from the perspective of active glazing and geothermal heat exchange combined operation, in our climate. By parameterization of its functions, the added benefit of its integration it is discussed, particularly from the improvement of the heat pump performance COP (Coefficient of Performance) in heating and efficiency EER (Energy Efficiency Ratio) in cooling. In the case study of the enclosure in the School of Architecture, the contribution of the active glazing façade in qualifying the enclosure as nearly Zero Energy Building has been analyzed, and the feasibility and profitability of the system are studied. The sixth chapter sets the conclusions of the investigation. To date, the system may require high initial investment; however, high efficiency with low architectural impact is generated. Operational costs are highly reduced as well as the size and complexity of the energy production systems, which normally have huge visual impact on buildings. By the active façade with geothermal supply, the deck area it is not condemned. Useful volume is not consumed by the presence of air-conditioning equipment. Useful surface and room height are not reduced by insulation reinforcement. After discussion, water flow glazing is considered a potential value alternative in nZEB design and construction processes. Finally, this chapter proposes future research lines aiming to increase the knowledge of active water flow glazing technology. The last chapter presents research dissemination activities. Additionally, a technological improvement to existing active facades has been developed, which has resulted in a patent application, currently in handling process.