Automated classification of limb fractures from free-text radiology reports using a clinician-informed gazetteer methodology

Background Timely diagnosis and reporting of patient symptoms in hospital emergency departments (ED) is a critical component of health services delivery. However, due to dispersed information resources and a vast amount of manual processing of unstructured information, accurate point-of-care diagnosis is often difficult. Aims The aim of this research is to report initial experimental evaluation of a clinician-informed automated method for the issue of initial misdiagnoses associated with delayed receipt of unstructured radiology reports. Method A method was developed that resembles clinical reasoning for identifying limb abnormalities. The method consists of a gazetteer of keywords related to radiological findings; the method classifies an X-ray report as abnormal if it contains evidence contained in the gazetteer. A set of 99 narrative reports of radiological findings was sourced from a tertiary hospital. Reports were manually assessed by two clinicians and discrepancies were validated by a third expert ED clinician; the final manual classification generated by the expert ED clinician was used as ground truth to empirically evaluate the approach. Results The automated method that attempts to individuate limb abnormalities by searching for keywords expressed by clinicians achieved an F-measure of 0.80 and an accuracy of 0.80. Conclusion While the automated clinician-driven method achieved promising performances, a number of avenues for improvement were identified using advanced natural language processing (NLP) and machine learning techniques.

Optimal Bayesian experimental design for models with intractable likelihoods using indirect inference applied to biological process models

This paper addresses the problem of determining optimal designs for biological process models with intractable likelihoods, with the goal of parameter inference. The Bayesian approach is to choose a design that maximises the mean of a utility, and the utility is a function of the posterior distribution. Therefore, its estimation requires likelihood evaluations. However, many problems in experimental design involve models with intractable likelihoods, that is, likelihoods that are neither analytic nor can be computed in a reasonable amount of time. We propose a novel solution using indirect inference (II), a well established method in the literature, and the Markov chain Monte Carlo (MCMC) algorithm of Müller et al. (2004). Indirect inference employs an auxiliary model with a tractable likelihood in conjunction with the generative model, the assumed true model of interest, which has an intractable likelihood. Our approach is to estimate a map between the parameters of the generative and auxiliary models, using simulations from the generative model. An II posterior distribution is formed to expedite utility estimation. We also present a modification to the utility that allows the Müller algorithm to sample from a substantially sharpened utility surface, with little computational effort. Unlike competing methods, the II approach can handle complex design problems for models with intractable likelihoods on a continuous design space, with possible extension to many observations. The methodology is demonstrated using two stochastic models; a simple tractable death process used to validate the approach, and a motivating stochastic model for the population evolution of macroparasites.

Biodiesel production from non-edible beauty leaf (Calophyllum Inophyllum) oil : process optimization using response surface methodology (RSM)

In recent years, the beauty leaf plant (Calophyllum Inophyllum) is being considered as a potential 2nd generation biodiesel source due to high seed oil content, high fruit production rate, simple cultivation and ability to grow in a wide range of climate conditions. However, however, due to the high free fatty acid (FFA) content in this oil, the potential of this biodiesel feedstock is still unrealized, and little research has been undertaken on it. In this study, transesterification of beauty leaf oil to produce biodiesel has been investigated. A two-step biodiesel conversion method consisting of acid catalysed pre-esterification and alkali catalysed transesterification has been utilized. The three main factors that drive the biodiesel (fatty acid methyl ester (FAME)) conversion from vegetable oil (triglycerides) were studied using response surface methodology (RSM) based on a Box-Behnken experimental design. The factors considered in this study were catalyst concentration, methanol to oil molar ratio and reaction temperature. Linear and full quadratic regression models were developed to predict FFA and FAME concentration and to optimize the reaction conditions. The significance of these factors and their interaction in both stages was determined using analysis of variance (ANOVA). The reaction conditions for the largest reduction in FFA concentration for acid catalysed pre-esterification was 30:1 methanol to oil molar ratio, 10% (w/w) sulfuric acid catalyst loading and 75 °C reaction temperature. In the alkali catalysed transesterification process 7.5:1 methanol to oil molar ratio, 1% (w/w) sodium methoxide catalyst loading and 55 °C reaction temperature were found to result in the highest FAME conversion. The good agreement between model outputs and experimental results demonstrated that this methodology may be useful for industrial process optimization for biodiesel production from beauty leaf oil and possibly other industrial processes as well.

Experimental and statistical investigation of Australian native plants for second-generation biodiesel production

This work explores the potential of Australian native plants as a source of second-generation biodiesel for internal combustion engines application. Biodiesels were evaluated from a number of non-edible oil seeds which are grow naturally in Queensland, Australia. The quality of the produced biodiesels has been investigated by several experimental and numerical methods. The research methodology and numerical model developed in this study can be used for a broad range of biodiesel feedstocks and for the future development of renewable native biodiesel in Australia.

Pars pro toto: Experimental exhibition design and curatorial paradigms

'Pars pro toto: Experimental Exhibition Design and Curatorial Paradigms' is situated within the ongoing debate over the conflation of art and curating, and the subsequent tension between artistic autonomy and curatorial intervention. This practice-led research project acclimates these polarities using a collaborative and discursive curatorial methodology in the creation of two exhibitions. Both exhibitions, one digital and one primarily physical, investigated how the temporary exhibition can operate as a site for provocation, how the suggested methodology facilitates the relationship between artist and curator within this paradigm, and outlines factors that assist in expanding the definition of the contemporary curatorial role.

Experimental measurement of the mechanical properties of carotid atherothrombotic plaque fibrous cap

Eleven carotid atherothrombotic plaque samples were harvested from patients. Three samples that were highly calcified were discarded, while eight yielded results. The elastic properties of the material were estimated by fitting the measured indentation response to finite element simulations. The methodology was refined and its accuracy quantified using a synthetic rubber. The neo-Hookean form of the material model gave a good fit to the measured response of the tissue. The inferred shear modulus μ was found to be in the range 7-100 kPa, with a median value of 11 kPa. A review of published materials data showed a wide range of material properties for human atherothrombotic tissue. The effects of anisotropy and time dependency in these published results were highlighted. The present measurements were comparable to the static radial compression tests of Lee et al, 1991 [Structure-dependent dynamic behaviour of fibrous caps from human atherosclerotic plaques. Circulation 83, 1764-1770].

A design methodology for selecting and placement of sensors in multimedia surveillance systems

This paper addresses the problem of how to select the optimal number of sensors and how to determine their placement in a given monitored area for multimedia surveillance systems. We propose to solve this problem by obtaining a novel performance metric in terms of a probability measure for accomplishing the task as a function of set of sensors and their placement. This measure is then used to find the optimal set. The same measure can be used to analyze the degradation in system 's performance with respect to the failure of various sensors. We also build a surveillance system using the optimal set of sensors obtained based on the proposed design methodology. Experimental results show the effectiveness of the proposed design methodology in selecting the optimal set of sensors and their placement.

Differential Activities of the Two Closely Related Withanolides, Withaferin A and Withanone: Bioinformatics and Experimental Evidences

Background and Purpose: Withanolides are naturally occurring chemical compounds. They are secondary metabolites produced via oxidation of steroids and structurally consist of a steroid-backbone bound to a lactone or its derivatives. They are known to protect plants against herbivores and have medicinal value including anti-inflammation, anti-cancer, adaptogenic and anti-oxidant effects. Withaferin A (Wi-A) and Withanone (Wi-N) are two structurally similar withanolides isolated from Withania somnifera, also known as Ashwagandha in Indian Ayurvedic medicine. Ashwagandha alcoholic leaf extract (i-Extract), rich in Wi-N, was shown to kill cancer cells selectively. Furthermore, the two closely related purified phytochemicals, Wi-A and Wi-N, showed differential activity in normal and cancer human cells in vitro and in vivo. We had earlier identified several genes involved in cytotoxicity of i-Extract in human cancer cells by loss-of-function assays using either siRNA or randomized ribozyme library. Methodology/Principal Findings: In the present study, we have employed bioinformatics tools on four genes, i.e., mortalin, p53, p21 and Nrf2, identified by loss-of-function screenings. We examined the docking efficacy of Wi-N and Wi-A to each of the four targets and found that the two closely related phytochemicals have differential binding properties to the selected cellular targets that can potentially instigate differential molecular effects. We validated these findings by undertaking parallel experiments on specific gene responses to either Wi-N or Wi-A in human normal and cancer cells. We demonstrate that Wi-A that binds strongly to the selected targets acts as a strong cytotoxic agent both for normal and cancer cells. Wi-N, on the other hand, has a weak binding to the targets; it showed milder cytotoxicity towards cancer cells and was safe for normal cells. The present molecular docking analyses and experimental evidence revealed important insights to the use of Wi-A and Wi-N for cancer treatment and development of new anti-cancer phytochemical cocktails.

Optimization of thermoacoustic primemover using response surface methodology

Thermoacoustic engines are energy conversion devices that convert thermal energy from a high-temperature heat source into useful work in the form of acoustic power while diverting waste heat into a cold sink; it can be used as a drive for cryocoolers and refrigerators. Though the devices are simple to fabricate, it is very challenging to design an optimized thermoacoustic primemover with better performance. The study presented here aims to optimize the thermoacoustic primemover using response surface methodology. The influence of stack position and its length, resonator length, plate thickness, and plate spacing on pressure amplitude and frequency in a thermoacoustic primemover is investigated in this study. For the desired frequency of 207 Hz, the optimized value of the above parameters suggested by the response surface methodology has been conducted experimentally, and simulations are also performed using DeltaEC. The experimental and simulation results showed similar output performance.

A general methodology for calculating mixed mode stress intensity factors and fracture toughness of solder joints with interfacial cracks

Solder joints in electronic packages undergo thermo-mechanical cycling, resulting in nucleation of micro-cracks, especially at the solder/bond-pad interface, which may lead to fracture of the joints. The fracture toughness of a solder joint depends on material properties, process conditions and service history, as well as strain rate and mode-mixity. This paper reports on a methodology for determining the mixed-mode fracture toughness of solder joints with an interfacial starter-crack, using a modified compact mixed mode (CMM) specimen containing an adhesive joint. Expressions for stress intensity factor (K) and strain energy release rate (G) are developed, using a combination of experiments and finite element (FE) analysis. In this methodology, crack length dependent geometry factors to convert for the modified CMM sample are first obtained via the crack-tip opening displacement (CTOD)-based linear extrapolation method to calculate the under far-field mode I and II conditions (f(1a) and f(2a)), (ii) generation of a master-plot to determine a(c), and (iii) computation of K and G to analyze the fracture behavior of joints. The developed methodology was verified using J-integral calculations, and was also used to calculate experimental fracture toughness values of a few lead-free solder-Cu joints. (C) 2014 Elsevier Ltd. All rights reserved.

Cybernetic Modeling Revisited: A Method for Inferring the Cybernetic Variables u(i) from Experimental Data

The cybernetic modeling framework for the growth of microorganisms provides for an elegant methodology to account for the unknown regulatory phenomena through the use of cybernetic variables for enzyme induction and activity. In this paper, we revisit the assumption of limited resources for enzyme induction (Sigma u(i) = 1) used in the cybernetic modeling framework by presenting a methodology for inferring the individual cybernetic variables u(i) from experimental data. We use this methodology to infer u(i) during the simultaneous consumption of glycerol and lactose by Escherichia coli and then model the fitness trade-offs involved in the recently discovered predictive regulation strategy of microorganisms.

Personal identity. A theoretical and experimental analysis

Published as article in: Journal of Economic Methodology, 2010, vol. 17, issue 3, pages 261-275.

NUMERICAL AND EXPERIMENTAL STUDY ON LIQUID-SOLID FLOW IN A HYDROCYCLONE

Hydrocyclones are widely used in industry, of which the geometrical design using CFD techniques is gaining more popularity in recent years. In this study, the Euler-Euler approach and the Reynolds stress model are applied to simulate the liquid-solid flowfield in a hydrocyclone. The methodology is validated by a good agreement between experimental data and numerical results. Within the research range, the simulation indicates that the liquid-solid separation mainly occurs in the conical segment, and increasing conical height or decreasing cylindrical height helps to improve the grade efficiencies of solid particles. Based on these results, two of the same hydrocyclones are designed and installed in series to establish a liquid-solid separation system. Many experiments are then conducted under different conditions, in which the effects of the water cut and the second hydrocyclone on the separation are investigated. The results also confirm that smaller solid particles are more susceptible to the inlet conditions, and the second hydrocyclone plays a more important role as the water cut reduces.

Análise da resposta dinâmica experimental de uma passarela tubular mista, aço-concreto, submetida ao caminhar humano.

Este trabalho de pesquisa apresenta como objetivo principal o desenvolvimento de investigação experimental dinâmica sobre estrutura real de uma passarela tubular mista aço-concreto. O sistema estrutural objeto deste trabalho corresponde a uma passarela composta por três vãos (32,5m, 17,5m e 20,0m, respectivamente) e dois balanços (7,50m e 5,0m, respectivamente), com comprimento total de 82,5m. A passarela com estrutura contínua de aço com as ligações soldadas se apoia em quatro pórticos também de aço. Estruturalmente está constituída por duas treliças planas que se interligam através de contraventamentos horizontais fixados na corda superior e inferior da treliça e lajes de concreto, formando um sistema misto com interação completa. A estrutura está submetida correntemente à travessia de pedestres e ciclistas. Testes experimentais foram realizados sobre o sistema estrutural e confrontados com resultados numéricos. Para a modelagem numérica do sistema são empregadas técnicas usuais de discretização, via método dos elementos finitos (MEF), por meio do programa ANSYS. Os resultados experimentais são analisados de acordo com a metodologia desenvolvida, sendo realizada análise modal experimental para a determinação das propriedades dinâmicas: freqüências, modos e taxa de amortecimento, enquanto que os resultados da estrutura, em termos de aceleração de pico, são comparados com os valores limites propostos por diversos autores, normas e recomendações de projeto, para uma avaliação do desempenho da estrutura em relação a vibração quando solicitada pelo caminhar dos pedestres no que diz respeito a critério para conforto humano.

Equilíbrio líquido-líquido entre ácido acético, água e fenólicos: experimental e modelagem

Com o passar do tempo, a população mundial vem se conscientizando mais sobre problemas ambientais. Isso fez surgir uma demanda por tecnologias novas que possam se encaixar no cenário de sustentabilidade. Instabilidades frequentes no cenário político-econômico global acabam por elevar o preço do barril do petróleo. Assim a indústria química começa a buscar por alternativas que tenham a mesma versatilidade do petróleo. Dentre as opções de combustíveis renováveis, destaca-se o bio-óleo de pirólise. Seu interesse em estudos científicos vem do fato de poder-se utilizar do rejeito de processos como matéria prima, não necessitando competir por espaço com a plantação de alimentos. Sua composição pode ser representada por ácidos e fenóis. Em especial destacamos o ácido acético e fenóis oxigenados como m-cresol, o-cresol, p-cresol e guaiacol por estarem presentes em grandes quantidades. Sua separação das frações menos polares do bio-óleo pode ser realizada por meio de extração com água que é um reagente abundante e de baixo custo. O conhecimento das propriedades desses componentes puros é amplamente disponível na literatura, porém dados de composições das fases corrosivas, como misturas ternárias de água-ácido acético-m-cresol/o-cresol/p-cresol/guaiacol nas temperaturas de (298,15, 310,65 e 323,15) K são escassos. Devido a isso, o uso de modelos termodinâmicos para simulação do comportamento desses sistemas torna-se interessante. Todavia, quando são testadas as capacidades dos modelos clássicos, como o UNIFAC e NRTL, percebe-se que os mesmos não conseguem reproduzir o comportamento da binodal dos componentes corrosivos. Sendo assim, essa dissertação investigou soluções para melhorar a descrição desses sistemas, assim como obteve dados experimentais para tais sistemas de misturas ternárias de água-ácido acético-m-cresol/o-cresol/p-cresol/guaiacol nas temperaturas de (298,15, 310,65 e 323,15) K; desenvolveu-se uma metodologia para estimar parâmetros do modelo NRTL a partir de dados de composição da binodal e verificou-se a possibilidade de utilizar o modelo UNIFAC para prever o comportamento de equilíbrio de fases. Como resultado foram obtidos 314 novos dados experimentais, obtiveram-se parâmetros para o modelo NRTL que conseguem reproduzir com acurácia a forma da binodal com a metodologia proposta e verificou-se a necessidade de aperfeiçoamento no estudo do modelo UNIFAC para otimizar sua utilização na previsão do comportamento dos sistemas estudados