Differential gene expression profiles of hepatocellular carcinomas associated or not with viral infection

Chronic hepatitis B (HBV) and C (HCV) virus infections are the most important factors associated with hepatocellular carcinoma (HCC), but tumor prognosis remains poor due to the lack of diagnostic biomarkers. In order to identify novel diagnostic markers and therapeutic targets, the gene expression profile associated with viral and non-viral HCC was assessed in 9 tumor samples by oligo-microarrays. The differentially expressed genes were examined using a z-score and KEGG pathway for the search of ontological biological processes. We selected a non-redundant set of 15 genes with the lowest P value for clustering samples into three groups using the non-supervised algorithm k-means. Fisher’s linear discriminant analysis was then applied in an exhaustive search of trios of genes that could be used to build classifiers for class distinction. Different transcriptional levels of genes were identified in HCC of different etiologies and from different HCC samples. When comparing HBV-HCC vs HCV-HCC, HBV-HCC/HCV-HCC vs non-viral (NV)-HCC, HBC-HCC vs NV-HCC, and HCV-HCC vs NV-HCC of the 58 non-redundant differentially expressed genes, only 6 genes (IKBKβ, CREBBP, WNT10B, PRDX6, ITGAV, and IFNAR1) were found to be associated with hepatic carcinogenesis. By combining trios, classifiers could be generated, which correctly classified 100% of the samples. This expression profiling may provide a useful tool for research into the pathophysiology of HCC. A detailed understanding of how these distinct genes are involved in molecular pathways is of fundamental importance to the development of effective HCC chemoprevention and treatment.

Clustering of psychiatric and somatic illnesses in the general population: multimorbidity and socioeconomic correlates

The distribution of psychiatric disorders and of chronic medical illnesses was studied in a population-based sample to determine whether these conditions co-occur in the same individual. A representative sample (N = 1464) of adults living in households was assessed by the Composite International Diagnostic Interview, version 1.1, as part of the São Paulo Epidemiological Catchment Area Study. The association of sociodemographic variables and psychological symptoms regarding medical illness multimorbidity (8 lifetime somatic conditions) and psychiatric multimorbidity (15 lifetime psychiatric disorders) was determined by negative binomial regression. A total of 1785 chronic medical conditions and 1163 psychiatric conditions were detected in the population concentrated in 34.1 and 20% of respondents, respectively. Subjects reporting more psychiatric disorders had more medical illnesses. Characteristics such as age range (35-59 years, risk ratio (RR) = 1.3, and more than 60 years, RR = 1.7), being separated (RR = 1.2), being a student (protective effect, RR = 0.7), being of low educational level (RR = 1.2) and being psychologically distressed (RR = 1.1) were determinants of medical conditions. Age (35-59 years, RR = 1.2, and more than 60 years, RR = 0.5), being retired (RR = 2.5), and being psychologically distressed (females, RR = 1.5, and males, RR = 1.4) were determinants of psychiatric disorders. In conclusion, psychological distress and some sociodemographic features such as age, marital status, occupational status, educational level, and gender are associated with psychiatric and medical multimorbidity. The distribution of both types of morbidity suggests the need of integrating mental health into general clinical settings.

Manual and semi-automatic quantification of in vivo ¹H-MRS data for the classification of human primary brain tumors

In vivo proton magnetic resonance spectroscopy (¹H-MRS) is a technique capable of assessing biochemical content and pathways in normal and pathological tissue. In the brain, ¹H-MRS complements the information given by magnetic resonance images. The main goal of the present study was to assess the accuracy of ¹H-MRS for the classification of brain tumors in a pilot study comparing results obtained by manual and semi-automatic quantification of metabolites. In vivo single-voxel ¹H-MRS was performed in 24 control subjects and 26 patients with brain neoplasms that included meningiomas, high-grade neuroglial tumors and pilocytic astrocytomas. Seven metabolite groups (lactate, lipids, N-acetyl-aspartate, glutamate and glutamine group, total creatine, total choline, myo-inositol) were evaluated in all spectra by two methods: a manual one consisting of integration of manually defined peak areas, and the advanced method for accurate, robust and efficient spectral fitting (AMARES), a semi-automatic quantification method implemented in the jMRUI software. Statistical methods included discriminant analysis and the leave-one-out cross-validation method. Both manual and semi-automatic analyses detected differences in metabolite content between tumor groups and controls (P < 0.005). The classification accuracy obtained with the manual method was 75% for high-grade neuroglial tumors, 55% for meningiomas and 56% for pilocytic astrocytomas, while for the semi-automatic method it was 78, 70, and 98%, respectively. Both methods classified all control subjects correctly. The study demonstrated that ¹H-MRS accurately differentiated normal from tumoral brain tissue and confirmed the superiority of the semi-automatic quantification method.

Semi-automatic measurement of visual verticality perception in humans reveals a new category of visual field dependency

Previous assessment of verticality by means of rod and rod and frame tests indicated that human subjects can be more (field dependent) or less (field independent) influenced by a frame placed around a tilted rod. In the present study we propose a new approach to these tests. The judgment of visual verticality (rod test) was evaluated in 50 young subjects (28 males, ranging in age from 20 to 27 years) by randomly projecting a luminous rod tilted between -18 and +18° (negative values indicating left tilts) onto a tangent screen. In the rod and frame test the rod was displayed within a luminous fixed frame tilted at +18 or -18°. Subjects were instructed to verbally indicate the rod’s inclination direction (forced choice). Visual dependency was estimated by means of a Visual Index calculated from rod and rod and frame test values. Based on this index, volunteers were classified as field dependent, intermediate and field independent. A fourth category was created within the field-independent subjects for whom the amount of correct guesses in the rod and frame test exceeded that of the rod test, thus indicating improved performance when a surrounding frame was present. In conclusion, the combined use of subjective visual vertical and the rod and frame test provides a specific and reliable form of evaluation of verticality in healthy subjects and might be of use to probe changes in brain function after central or peripheral lesions.

MODELAGEM E SIMULAÇÃO DA DESTERPENAÇÃO DO ÓLEO DA CASCA DE LARANJA COM CO2 SUPERCRÍTICO EM MODO SEMI-CONTÍNUO

A desterpenação do óleo da casca de laranja com CO2 supercrítico foi investigada através da modelagem e simulação da separação de uma mistura sintética de limoneno (90 % em peso) e linalol (10 %), em um extrator operando em modo semi-contínuo. A modelagem matemática da extração supercrítica foi realizada por analogia com a destilação de uma mistura binária, em batelada, expressando-se a composição das fases em equilíbrio numa base molar livre de CO2. O cálculo das variáveis do processo foi feito por integração numérica da equação de Rayleigh empregando-se o método de Runge-Kutta de quarta ordem. Para a determinação da relação de equilíbrio entre as fases, adotou-se a equação de Peng-Robinson modificada, com os parâmetros de interação obtidos de dados de ELV dos sistemas binários CO2+limoneno e CO2+linalol e do ternário CO2+limoneno+linalol.

Efeito do cloreto de sódio na produção de proteínas (Saccharomyces cerevisiae) em fermentação semi-sólida

Estudou-se o efeito do cloreto de sódio sobre a produção de biomassa e proteínas extracelulares totais, durante o cultivo de Saccharomyces cerevisiae. A levedura foi desenvonvida em fermentador de leito fluidizado, com vazão de ar de 70L/min, temperatura de 33° C, e umidade relativa de 99-100%. Foi utilizado substrato semi-sólido de batatas, previamente hidrolizado, acrescido de cloreto de sódio 0,6M. O crescimento celular foi monitorado por densidade óptica à 595 nm. Observou-se, como resultado, que a adição de cloreto de sódio 0,6M induziu um aumento de 36,86% na produção de proteínas extracelulares totais, mas inibiu o crescimento celular em 27,62% quando os meios com e sem cloreto de sódio foram testados. A produção máxima de biomassa, tanto para os experimentos com adição de cloreto de sódio quanto para o sem adição, ocorreu no período de 7 a 9 horas de fermentacão, enquanto que a produção de proteínas extracelulares totais, independentemente da adição do sal, ocorreu durante o período de 9 a 12 horas de fermentação. As velocidades específicas máximas de crescimento foram de 0,350/h para os experimentos com sal, e de 0,339/h para aqueles sem a adição do sal. A combinação de alta vazão de ar e a presença de cloreto de sódio 0,6M na fermentação parece não ter tido efeito sobre a duração da fase lag na curva de crescimento celular de Saccharomyces cerevisiae.

Development and characterization of edible films based on gluten from semi-hard and soft Brazilian wheat flours (development of films based on gluten from wheat flours)

Edible films based on gluten from four types of Brazilian wheat gluten (2 "semi-hard" and 2 "soft") were prepared and mechanical and barrier properties were compared with those of wheat gluten films with vital gluten. Water vapor, oxygen permeability, tensile strength and percent elongation at break, solubility in water and surface morphology were measured. The films from "semi-hard" wheat flours showed similar water vapor permeability and solubility in water to films from vital gluten and better tensile strength than the films from "soft" and vital gluten. The films from vital gluten had higher elongation at break and oxygen permeability and also lower solubility in water than the films from the Brazilian wheat "soft" flours. In spite of the vital gluten showed greater mechanical resistance, desirable for the bakery products, for the purpose of developing gluten films Brazilian "semi-hard" wheat flours can be used instead of vital gluten, since they showed similar barrier and mechanical properties.

Efeito do teor de amido danificado na produção de biscoitos tipo semi-duros

O trabalho objetivou estudar a danificação do amido de farinha de trigo por moagem e o seu efeito na produção de biscoitos tipo semi-duros. Amostras de trigo dos cultivares BR 23, BRS Angico e Rubi, com características diferentes quanto à dureza foram moídas em moinho de rolos através de uma passagem pelo conjunto de quebra; quebra mais três reduções na umidade 16% e quebra mais três reduções na umidade 12%. Neste tratamento, a moagem foi complementada pelo emprego de moinho de bolas. Nas farinhas, foram realizadas análises físicas, químicas, reológicas e funcionais, utilizando delineamento casualizado em planejamento fatorial completo 3 x 3, totalizando nove tratamentos. Os resultados foram analisados estatisticamente e, nos modelos significativos, as médias comparadas entre si pelo teste de Tukey a 5% de probabilidade de erro. Os resultados rendimento de quebra, proteína bruta, amido danificado, força geral do glúten (W x 10-4J) e relação tenacidade/extensibilidade (P/L) indicam que a farinha do cultivar BRS Angico apresentou melhores características para a produção de biscoitos seguido de BR 23 e Rubi. O teor de amido danificado produzido durante a moagem dos trigos influencia nas propriedades funcionais dos biscoitos apresentando melhor resultado aqueles obtidos a partir de uma passagem pelo conjunto de quebra.

Sentence Compression with Supervised Machine Learning

The subject of the thesis is automatic sentence compression with machine learning, so that the compressed sentences remain both grammatical and retain their essential meaning. There are multiple possible uses for the compression of natural language sentences. In this thesis the focus is generation of television program subtitles, which often are compressed version of the original script of the program. The main part of the thesis consists of machine learning experiments for automatic sentence compression using different approaches to the problem. The machine learning methods used for this work are linear-chain conditional random fields and support vector machines. Also we take a look which automatic text analysis methods provide useful features for the task. The data used for machine learning is supplied by Lingsoft Inc. and consists of subtitles in both compressed an uncompressed form. The models are compared to a baseline system and comparisons are made both automatically and also using human evaluation, because of the potentially subjective nature of the output. The best result is achieved using a CRF - sequence classification using a rich feature set. All text analysis methods help classification and most useful method is morphological analysis. Tutkielman aihe on suomenkielisten lauseiden automaattinen tiivistäminen koneellisesti, niin että lyhennetyt lauseet säilyttävät olennaisen informaationsa ja pysyvät kieliopillisina. Luonnollisen kielen lauseiden tiivistämiselle on monta käyttötarkoitusta, mutta tässä tutkielmassa aihetta lähestytään television ohjelmien tekstittämisen kautta, johon käytännössä kuuluu alkuperäisen tekstin lyhentäminen televisioruudulle paremmin sopivaksi. Tutkielmassa kokeillaan erilaisia koneoppimismenetelmiä tekstin automaatiseen lyhentämiseen ja tarkastellaan miten hyvin erilaiset luonnollisen kielen analyysimenetelmät tuottavat informaatiota, joka auttaa näitä menetelmiä lyhentämään lauseita. Lisäksi tarkastellaan minkälainen lähestymistapa tuottaa parhaan lopputuloksen. Käytetyt koneoppimismenetelmät ovat tukivektorikone ja lineaarisen sekvenssin mallinen CRF. Koneoppimisen tukena käytetään tekstityksiä niiden eri käsittelyvaiheissa, jotka on saatu Lingsoft OY:ltä. Luotuja malleja vertaillaan Lopulta mallien lopputuloksia evaluoidaan automaattisesti ja koska teksti lopputuksena on jossain määrin subjektiivinen myös ihmisarviointiin perustuen. Vertailukohtana toimii kirjallisuudesta poimittu menetelmä. Tutkielman tuloksena paras lopputulos saadaan aikaan käyttäen CRF sekvenssi-luokittelijaa laajalla piirrejoukolla. Kaikki kokeillut teksin analyysimenetelmät auttavat luokittelussa, joista tärkeimmän panoksen antaa morfologinen analyysi.

Biotechnological richness of the northeastern semi-arid region: antioxidant activity of casein hydrolysates from Moxotó goat milk (Capra hircus Linnaeus, 1758) obtained by papain action

This study aimed to identify antioxidant peptides from caprine casein hydrolysates by papain application using MALDI-TOF mass spectrometer, and a 2² full factorial design, with 4 axial points, in order to evaluate kinetic parameters (time and pH) effects on the degree of hydrolysis as well as the antioxidant activity of Moxotó goat milk casein peptides. Degree of hydrolysis was determined by total and soluble protein ratio in casein. Antioxidant activity was measured by ABTS method with 2, 2-cation-azinobis (3-ethylbenzothiazoline-6-sulfonic acid). TROLOX was used as standard. Peptide pattern and sequence of antioxidant amino acids were obtained using MALDI-TOF/MS. The highest degree of hydrolysis (28.5%) and antioxidant activity (2329.6 mmol.L TROLOX. mg- 1 peptide) were observed in the permeate. NENLL, NPWDQVK and LLYQEPVLGPV peptides, detected in the permeate, were pointed as the responsible for antioxidant activity, suggesting their potential application as food supplement and pharmaceutical products.

Hydration kinetics, physicochemical composition, and textural changes of transgenic corn kernels of flint, semi-flint, and dent varieties

The hydration kinetics of transgenic corn types flint DKB 245PRO, semi-flint DKB 390PRO, and dent DKB 240PRO was studied at temperatures of 30, 40, 50, and 67 °C. The concentrated parameters model was used, and it fits the experimental data well for all three cultivars. The chemical composition of the corn kernels was also evaluated. The corn cultivar influenced the initial rate of absorption and the water equilibrium concentration, and the dent corn absorbed more water than the other cultivars at the four temperatures analyzed. The effect of hydration on the kernel texture was also studied, and it was observed that there was no significant difference in the deformation force required for all three corn types analyzed with longer hydration period.

Eventos vitais estressores e lesão renal aguda em centros de terapia semi-intensiva e intensiva

INTRODUÇÃO: Diversos estudos evidenciam que as alterações fisiopatológicas, quando associadas ao estresse, podem influenciar a fisiologia renal e estão associadas ao aparecimento de doenças. Entretanto, não foi encontrado nenhum estudo que tivesse realizado investigação associando estresse e lesão renal aguda. OBJETIVO: Avaliar a associação entre os eventos vitais estressores e o diagnóstico de lesão renal aguda, especificando as classes de eventos mais estressores para esses pacientes, nos últimos 12 meses. MÉTODOS: Estudo caso-controle. Foi realizado no Hospital São Paulo da Universidade Federal de São Paulo e no Hospital dos Servidores do Estado de São Paulo. Foram incluídos pacientes com lesão renal aguda, sem doenças crônicas, assistidos em Centros de Terapia Intensiva ou semi-intensivas. Os Controles incluíram pacientes assistidos nos mesmos Centros de Terapia Intensiva, com outras doenças agudas, exceto lesão renal aguda e, também, sem doenças crônicas. Dos 579 pacientes inicialmente identificados, 475 responderam ao instrumento Social Readjustment Rating Scale (SRRS) e 398 pacientes foram pareados por idade e sexo (199 casos/199 controles). RESULTADOS: Constatou-se que a frequência dos eventos vitais estressores nos casos apresentava equivalência estatística aos controles. A regressão logística para examinar os efeitos combinados das variáveis independentes associados aos eventos estressantes evidenciou que: o aumento da idade e as classes econômicas AB intensificam a chance da presença do evento estressante em cerca de duas vezes; as classes socioeconômicas AB do Hospital São Paulo elevam a chance de evento estressante. CONCLUSÕES: O presente estudo não evidenciou que o grupo com lesão renal aguda estivesse associado à maior frequência de eventos estressores, mas idade e renda elevadas e, ainda, o tipo de centro clínico estão associados.

From semi-stagnation to growth in a sino-centric market

According to recent available information, the Brazilian economy may be entering a cycle of sustained growth. The dominant current interpretation points to the progresses made in terms of monetary stability, Balance of Payments and structural reforms. Indeed, without monetary stability and the commercial opening of the economy, investments would not be increasing and credit growth would not be helping the emergence of millions of new consumers. But these achievements should be taken as generally conditioning, rather than actually shaping the new picture. Some unexpected (not rarely positive) consequences of overcoming the long enduring semi-stagnation, the emergence of China as a major player, and its consequences on the necessary re-structuring of the Brazilian industry, seem to be decisive in the present day redefinition of the Brazilian GDP growth potential.

Spectral retinal image processing and analysis for ophthalmology

Diabetic retinopathy, age-related macular degeneration and glaucoma are the leading causes of blindness worldwide. Automatic methods for diagnosis exist, but their performance is limited by the quality of the data. Spectral retinal images provide a significantly better representation of the colour information than common grayscale or red-green-blue retinal imaging, having the potential to improve the performance of automatic diagnosis methods. This work studies the image processing techniques required for composing spectral retinal images with accurate reflection spectra, including wavelength channel image registration, spectral and spatial calibration, illumination correction, and the estimation of depth information from image disparities. The composition of a spectral retinal image database of patients with diabetic retinopathy is described. The database includes gold standards for a number of pathologies and retinal structures, marked by two expert ophthalmologists. The diagnostic applications of the reflectance spectra are studied using supervised classifiers for lesion detection. In addition, inversion of a model of light transport is used to estimate histological parameters from the reflectance spectra. Experimental results suggest that the methods for composing, calibrating and postprocessing spectral images presented in this work can be used to improve the quality of the spectral data. The experiments on the direct and indirect use of the data show the diagnostic potential of spectral retinal data over standard retinal images. The use of spectral data could improve automatic and semi-automated diagnostics for the screening of retinal diseases, for the quantitative detection of retinal changes for follow-up, clinically relevant end-points for clinical studies and development of new therapeutic modalities.