Detection of Polyps via Shape and Appearance Modeling

Presented at the MICCAI 2008 Workshop on Computational and Visualization Challenges in the New Era of Virtual Colonoscopy, September 6, 2008, New York, USA.This paper describes a CAD system for the detection of colorectal polyps in CT. It is based on stochastic shape and appearance modeling of structures of the colon and rectum, in contrast to the data-driven approaches more commonly found in the literature it derives predictive stochastic models for the features used for classification. The method makes extensive use of medical domain knowledge in the design of the models and in the setting of their parameters. The proposed approach was successfully tested on challenging datasets acquired under a protocol with little colonic preparation; such protocol reduces patient discomfort and potentially improves compliance

ERRORS IN QUANTITIES OF INTEREST IN THE LAMINATED PLATE BENDING PROBLEM USING HIERARCHIC SETS OF BASIS FUNCTIONS IN GFEM

A formulation for error estimation is developed for the bending problem of composite laminated plates based on the Mindlin-Reissner kinematic model discritized by the Generalized Finite Element Method (GFEM). The error estimation process starts with an upper bound in energy norm, which is obtained following the basic CRE (Constitutive Relation Error) framework of the Ladev`eze formulation, that is, the estimate is obtained from a statically admissible stress field computed at element level in a Neumann problem where the element boundary forces are equilibrated. The authors have previously shown that an accurate description of the in plane stresses in a laminate is essential to obtain an accurate approximation to the transverse shear stresses at the layers interfaces. Since important failure modes in laminated composite plates, like the delamination, are linked to the transverse stresses, it is essential to develop both, accurate post-processing procedures to compute improved transverse stresses, and also estimate techniques for the discretization errors. The first condition is adequately satisfied by GFEM. Therefore, the aim of the present work is to extend the general CRE technology to develop formulations to estimation of errors in Quantity of Interest (QI) identified preferably with the stress field in the laminated plate problem. One of the steps necessary in the CRE procedure is the computation of and admissible stress field in each element, in a Neumann problem where the boundary forces have been previously equilibrated. For a GFEM basis with high order enrichment, adequate procedures have to be sought. Here we use one single higher order finite element, based on displacement FEM, to obtain an approximation to the equilibrated field. The formulation is implemented for arbitrary degree of the basis, which allows an arbitrarily close approximation to the equilibrium condition. The sharpness of the QI’s error bounds is increased with the accuracy of the primal and dual global energy norm of errors. In the present work we investigate the effectiveness of a local GFEM p-enrichment as a tool to improve the approximability of the model in capturing the local gradients which characterizes response of the dual loading. The GFEM p-enrichment is implemented in a simple and straightforward way, as opposed to some other possible forms of enrichment, e.g. local h-refinement or a sub-domain approach. Numerical tests are performed to asses the effect of the different parameters in the modeling over the errors in the quantities of interest

Quantification of milk adulterants (starch, H2O2, and NaClO) using colorimetric assays coupled to smartphone image analysis

In this paper, a colorimetric method for the detection of milk adulterants using smartphone image analysis is reported. This is based on the reactions to detect hydrogen peroxide, sodium hypochlorite, and starch in milk, where a color variation is observed for each substance. The image analysis was performed by using lab-made apps (PhotoMetrix®, and RedGIM®) based on partial least squares regression with the histograms of the red-green-blue images. The image histograms are automatically calculated using the smartphone camera and processed within the app. The results have shown the capability of this method to predict the concentration of the three adulterants, demonstrating the potential of the use of digital images and smartphone applications associated with chemometric tools. This method presents a fast, low-cost, and portable way to quantify adulterants in Cow milk

Associações de Foraminíferos em Resposta a Variações Ambientais da Laguna de Aveiro -- Portugal

This study is based on the characterization of the sedimentary environment in selected sites, located in Aveiro canals and salt-pans, in the eastern-central and northern part of Aveiro Lagoon. Results of physicochemical parameters measured in water and sediment, as well as grain size, geochemical and microfaunal (benthic foraminifera) data are analyzed. The determinants factors of spatial and seasonal variability of living and dead foraminiferal assemblages were analyzed in two sampling periods, late summer and late winter, in order to study the response of these organisms to the impact caused by pollution and sazonal variation of physicochemical parameters. Biotic and abiotic results are analyzed to discriminate sites with different degree of environmental stress. The conditions of salinity, temperature, pH and Eh in the studied sites vary spatially and seasonally. The sediment in these locations is generally poorly oxygenated, suboxic or even anoxic a few millimeters below the surface. Some of the sites are affected by chemicals derived from industrial effluents and urban contaminants. The most polluted areas by heavy metals such as As, Cr, Cu and Zn are Porto de Salreu, Largo do Laranjo and some locals in the city of Aveiro. Foraminiferal assemblages in the studied sites integrate common lagoonal and estuarine euryhaline and eurythermic species, most of which tolerant to the oxygen reduction. The size of the living foraminiferal communities is reduced and their structure affected by increasing concentrations of heavy metals such as As, Cr, Cu and Zn, as well as by the high variability of environmental parameters such as low Eh, related to depressed levels of oxygen in the sediment, leading to the death of many species. The results also indicate a greater tolerance of some opportunistic species to the Pb enrichment, since the environment offer them abundance and quality of food.Este estudo baseia-se na caracterização do ambiente sedimentar de locais selecionados em canais e salinas da cidade de Aveiro, na zona central leste e na zona norte da Ria de Aveiro. Nessa caracterização foram utilizados os resultados de parâmetros físico-químicos medidos na água e nos sedimentos, assim como dados granulométricos, geoquímicos e microfaunais (foraminíferos bentônicos). Os fatores condicionantes da variabilidade espacial e sazonal das associações viva e morta de foraminíferos foram avaliados em dois períodos de amostragem: no final do verão e no final do inverno, tendo em vista a análise da resposta destes organismos ao impacto causado pela poluição e variação sazonal dos parâmetros físico-químicos. Os resultados bióticos e abióticos foram analisados para discriminar locais com diferente grau de estresseambiental. As condições de salinidade, temperatura, pH e Eh nos locais estudados variam espacial e sazonalmente. O sedimento nesses locais é em geral mal oxigenado, subóxico ou mesmo anóxico em alguns milímetros abaixo da superfície. Alguns dos locais encontram-se afetados por contaminantes químicos derivados de efluentes industriais e urbanos. As zonas mais poluídas por metais pesados como o As, Cr, Cu e Zn incluem o Porto de Salreu, Largo do Laranjo e alguns locais da Cidade de Aveiro. As associações de foraminíferos, nos locais estudados, integram espécies euritérmicas e eurihalinas comuns em ambientes lagunares e estuarinos, sendo majoritariamente tolerantes à redução de oxigênio. A dimensão das comunidades vivas de foraminíferos foi reduzida e a sua estrutura afetada pelo aumento das concentrações de metais pesados como As, Cr, Cu e Zn, assim como, pela variabilidade dos parâmetros ambientais, nomeadamente o Eh, relacionado com as condições de oxigenação do sedimento. Os dados indicam que as condições adversas podem ser causa de morte destes organismos. Sugerem também uma maior tolerância destes organismos ao enriquecimento por Pb, desde que o meio lhes proporcione abundância de alimento

A comprehensive assessment of the transcriptome of cork oak (Quercus suber) through EST sequencing

Background: Cork oak (Quercus suber) is one of the rare trees with the ability to produce cork, a material widely used to make wine bottle stoppers, flooring and insulation materials, among many other uses. The molecular mechanisms of cork formation are still poorly understood, in great part due to the difficulty in studying a species with a long life-cycle and for which there is scarce molecular/genomic information. Cork oak forests are of great ecological importance and represent a major economic and social resource in Southern Europe and Northern Africa. However, global warming is threatening the cork oak forests by imposing thermal, hydric and many types of novel biotic stresses. Despite the economic and social value of the Q. suber species, few genomic resources have been developed, useful for biotechnological applications and improved forest management. Results: We generated in excess of 7 million sequence reads, by pyrosequencing 21 normalized cDNA libraries derived from multiple Q. suber tissues and organs, developmental stages and physiological conditions. We deployed a stringent sequence processing and assembly pipeline that resulted in the identification of ~159,000 unigenes. These were annotated according to their similarity to known plant genes, to known Interpro domains, GO classes and E.C. numbers. The phylogenetic extent of this ESTs set was investigated, and we found that cork oak revealed a significant new gene space that is not covered by other model species or EST sequencing projects. The raw data, as well as the full annotated assembly, are now available to the community in a dedicated web portal at http://www.corkoakdb.org. Conclusions: This genomic resource represents the first trancriptome study in a cork producing species. It can be explored to develop new tools and approaches to understand stress responses and developmental processes in forest trees, as well as the molecular cascades underlying cork differentiation and disease response.Peer Reviewe

Determinação das curvas de secagem das sementes de andiroba em secador solar

The oil of crabwood is commonly extracted in Amazon by traditional or by pressing method. The extraction efficiency is related to the heating and water content of the seeds. Thus, the determination of a drying model that represent satisfactorily the experimental data is of paramount importance to minimize the changes introduced by the process, consequently obtaining a quality product. The objective of this study was to describe the drying kinetics of seeds of crabwood as well as adjust the mathematical models to the experimental data, using solar dryer. The coefficient of determination, the magnitude of the mean relative error and standard deviation of the estimate was used as the criterion of fit of mathematical models. Drying in a shorter period of time (14 days) of Carapa surinamensis to reach the water equilibrium content (12.28%) may be attributed to the smaller size of the seeds and the greater amount of oil compared to Carapa guianensis. Logarithmic and Midilli et al. were the model that best fitted the experimental data for seeds of both species of Andiroba. © 2015, Departamento de Engenharia Agricola - UFCG/Cnpq. All rights reserved