Raman Spectroscopic Studies on Screening of Myopathies

Myopathies are among the major causes of mortality in the world. There is no complete cure for this heterogeneous group of diseases, but a sensitive, specific, and fast diagnostic tool may improve therapy effectiveness. In this study, Raman spectroscopy is applied to discriminate between muscle mutants in Drosophila on the basis of associated changes at the molecular level. Raman spectra were collected from indirect flight muscles of mutants, upheld1 (up1), heldup(2) (hdp(2)), myosin heavy chain7 (Mhc7), actin88F(KM88) (Act88F(KM88)), upheld101 (up101), and Canton-S (CS) control group, for both 2 and 12 days old flies. Difference spectra (mutant minus control) of all the mutants showed an increase in nucleic acid and beta-sheet and/or random coil protein content along with a decrease in a-helix protein. Interestingly, the 12th day samples of up1 and Act88F(KM88) showed significantly higher levels of glycogen and carotenoids than CS. A principal components based linear discriminant analysis classification model was developed based on multidimensional Raman spectra, which classified the mutants according to their pathophysiology and yielded an overall accuracy of 97% and 93% for 2 and 12 days old flies, respectively. The up1 and Act88F(KM88) (nemaline-myopathy) mutants form a group that is clearly separated in a linear discriminant plane from up101 and hdp2 (cardiomyopathy) mutants. Notably, Raman spectra from a human sample with nemaline-myopathy formed a cluster with the corresponding Drosophila mutant (up1). In conclusion, this is the first demonstration in which myopathies, despite their heterogeneity, were screened on the basis of biochemical differences using Raman spectroscopy.

Development of the 2003 CU-HTK conversational telephone speech transcription system

This paper describes the development of the 2003 CU-HTK large vocabulary speech recognition system for Conversational Telephone Speech (CTS). The system was designed based on a multi-pass, multi-branch structure where the output of all branches is combined using system combination. A number of advanced modelling techniques such as Speaker Adaptive Training, Heteroscedastic Linear Discriminant Analysis, Minimum Phone Error estimation and specially constructed Single Pronunciation dictionaries were employed. The effectiveness of each of these techniques and their potential contribution to the result of system combination was evaluated in the framework of a state-of-the-art LVCSR system with sophisticated adaptation. The final 2003 CU-HTK CTS system constructed from some of these models is described and its performance on the DARPA/NIST 2003 Rich Transcription (RT-03) evaluation test set is discussed.

Automatic transcription of conversational telephone speech

This paper discusses the Cambridge University HTK (CU-HTK) system for the automatic transcription of conversational telephone speech. A detailed discussion of the most important techniques in front-end processing, acoustic modeling and model training, language and pronunciation modeling are presented. These include the use of conversation side based cepstral normalization, vocal tract length normalization, heteroscedastic linear discriminant analysis for feature projection, minimum phone error training and speaker adaptive training, lattice-based model adaptation, confusion network based decoding and confidence score estimation, pronunciation selection, language model interpolation, and class based language models. The transcription system developed for participation in the 2002 NIST Rich Transcription evaluations of English conversational telephone speech data is presented in detail. In this evaluation the CU-HTK system gave an overall word error rate of 23.9%, which was the best performance by a statistically significant margin. Further details on the derivation of faster systems with moderate performance degradation are discussed in the context of the 2002 CU-HTK 10 × RT conversational speech transcription system. © 2005 IEEE.

Evaluación perceptivo auditiva de voces degradas y su correlación con medidas acústicas

Resumen: El objetivo es determinar utilizando las mediciones acústicas, qué información es más relevante para el oyente al momento de categorizar el grado general de disfonía. Se eligieron 8 (4 voces femeninas y 4 voces masculinas. Cada emisión fue evaluada auditivo perceptualmente a través del item G de la escala GRBAS por 10 oyentes experimentados y acústicamente mediante medidas de aperiodicidad, ruido y caos. El estudio estadístico de análisis discriminante señala la importancia de GNE, Jit y Jitter_cc y Lyapunov como parámetros predictores del grado general de disfonía. La aplicación del método k-means evidencia que existen rasgos en los parámetros acústicos empleados que permiten agrupar objetivamente las voces estudiadas con 100% de precisión para la clase 0, 96% a la clase 2 y 79% a la clase 3. Un mayor número y variabilidad de casos se necesita a fin de verificar los resultados preliminares.

Biologically-inspired data decorrelation for hyper-spectral imaging

Hyper-spectral data allows the construction of more robust statistical models to sample the material properties than the standard tri-chromatic color representation. However, because of the large dimensionality and complexity of the hyper-spectral data, the extraction of robust features (image descriptors) is not a trivial issue. Thus, to facilitate efficient feature extraction, decorrelation techniques are commonly applied to reduce the dimensionality of the hyper-spectral data with the aim of generating compact and highly discriminative image descriptors. Current methodologies for data decorrelation such as principal component analysis (PCA), linear discriminant analysis (LDA), wavelet decomposition (WD), or band selection methods require complex and subjective training procedures and in addition the compressed spectral information is not directly related to the physical (spectral) characteristics associated with the analyzed materials. The major objective of this article is to introduce and evaluate a new data decorrelation methodology using an approach that closely emulates the human vision. The proposed data decorrelation scheme has been employed to optimally minimize the amount of redundant information contained in the highly correlated hyper-spectral bands and has been comprehensively evaluated in the context of non-ferrous material classification

O uso do boto-cinza (Sotalia guianensis) como sentinela da poluição continental por compostos organoclorados (DDT, PCB, HCH, HCB e Mirex) em baías costeiras do Estado do Rio de Janeiro

Concentrações de compostos organoclorados (DDTs, PCBs, HCHs, Mirex e HCB) foram determinadas em camadas externas e internas do tecido adiposo subcutâneo de 17 botos-cinza (Sotalia guianensis) da região Sudeste do Brasil. Não houve diferenças estatísticas significativas entre os estratos, relativo aos 37 compostos determinados, assim como ΣDDT, ΣPCB, ΣHCH, e as razões p,p-DDE/ΣDDT e ΣDDT/ΣPCB. Entretanto, foram observadas diferenças significativas nas concentrações de alguns compostos organoclorados de animais encalhados ou capturados acidentalmente quando comparados com animais biopsiados remotamente, sendo assim as comparações entre esses dois conjuntos de dados, devem ser vistas com cuidado. No presente estudo, as concentrações dos compostos organoclorados foram determinadas em biópsias de botos-cinza obtidas de 2007 a 2009, nas baías de Sepetiba (n=13) e Ilha Grande (n=11), Sudeste do Brasil. As concentrações (ng/g de lipídio) variaram de

Assobios de delfinídeos na costa do Estado do Rio de Janeiro: caracterização e comparação interespecífica

Os delfinídeos possuem um variado repertório de emissões sonoras, que são produzidos em diferentes contextos comportamentais e são importantes para as relações entre os indivíduos. As emissões sonoras dos delfinídeos são predominantemente utilizadas para a comunicação e são divididas em duas categorias: os sons pulsantes e os assobios. O presente estudo apresenta comparações entre os repertórios de assobios de três espécies de delfinídeos encontrados na costa do Estado do Rio de Janeiro: Stenella frontalis, Steno bredanensis e Sotalia guianensis. Três sistemas de gravação foram utilizados. Estes foram compostos por hidrofones HTI-96-MIN e C54XRS, e gravadores PMD 671 Marantz, FOSTEX (taxa de amostragem de 96 kHz) e SONY TCD-T8 (taxa de amostragem de 48 kHz). As análises dos espectrogramas foram realizadas no software Raven 1.4. Os assobios foram classificados em categorias de formas de contorno e 15 parâmetros acústicos foram mensurados em cada um destes sinais. A estatística descritiva foi realizada para os assobios de cada espécie, e estes foram comparados a partir de testes de comparação de médias e análise discriminante. Um total de 838 assobios foi analisado. Assobios com forma de contorno ascendente de S. frontalis, S. bredanensis, S. guianensis da Baía de Guanabara, da Baía de Ilha Grande e da Baía de Sepetiba corresponderam a 48,1% (N=63), 40,8% (N=47), 49,8% (N=98), 63,9% (N=126) e 58,1% (N=115) do repertório de cada grupo, respectivamente. Diferenças foram encontradas em praticamente todos os parâmetros entre assobios de S. bredanensis e S. guianensis. O maior número de semelhanças ocorreu entre assobios das populações distintas de S. guianensis. A taxa de classificação correta geral foi de 52,4%. Assobios de S. bredanensis apresentaram a maior classificação correta (84,3%). Assobios de S. frontalis apresentaram taxa de classificação correta de 55,7% e os de S. guianensis da Baía de Guanabara, Baía de Ilha Grande e Baía de Sepetiba apresentaram taxas de 57,9%, 48,7% e 29,8%, respectivamente. A análise discriminante realizada entre assobios ascendentes resultou em uma taxa de classificação correta menor (49%). As variáveis consideradas mais importantes para a discriminação entre espécies foram: FF, 3Q, 1Q, MOD e FM. Por meio de parâmetros acústicos foi possível discriminar grande parte dos assobios de espécies simpátricas, apesar de haver ainda sobreposições entre variáveis acústicas dos assobios das espécies comparadas neste estudo.

Inferring Population Genetic Structure in Widely and Continuously Distributed Carnivores: The Stone Marten (Martes foina) as a Case Study

The stone marten is a widely distributed mustelid in the Palaearctic region that exhibits variable habitat preferences in different parts of its range. The species is a Holocene immigrant from southwest Asia which, according to fossil remains, followed the expansion of the Neolithic farming cultures into Europe and possibly colonized the Iberian Peninsula during the Early Neolithic (ca. 7,000 years BP). However, the population genetic structure and historical biogeography of this generalist carnivore remains essentially unknown. In this study we have combined mitochondrial DNA (mtDNA) sequencing (621 bp) and microsatellite genotyping (23 polymorphic markers) to infer the population genetic structure of the stone marten within the Iberian Peninsula. The mtDNA data revealed low haplotype and nucleotide diversities and a lack of phylogeographic structure, most likely due to a recent colonization of the Iberian Peninsula by a few mtDNA lineages during the Early Neolithic. The microsatellite data set was analysed with a) spatial and non-spatial Bayesian individual-based clustering (IBC) approaches (STRUCTURE, TESS, BAPS and GENELAND), and b) multivariate methods [discriminant analysis of principal components (DAPC) and spatial principal component analysis (sPCA)]. Additionally, because isolation by distance (IBD) is a common spatial genetic pattern in mobile and continuously distributed species and it may represent a challenge to the performance of the above methods, the microsatellite data set was tested for its presence. Overall, the genetic structure of the stone marten in the Iberian Peninsula was characterized by a NE-SW spatial pattern of IBD, and this may explain the observed disagreement between clustering solutions obtained by the different IBC methods. However, there was significant indication for contemporary genetic structuring, albeit weak, into at least three different subpopulations. The detected subdivision could be attributed to the influence of the rivers Ebro, Tagus and Guadiana, suggesting that main watercourses in the Iberian Peninsula may act as semi-permeable barriers to gene flow in stone martens. To our knowledge, this is the first phylogeographic and population genetic study of the species at a broad regional scale. We also wanted to make the case for the importance and benefits of using and comparing multiple different clustering and multivariate methods in spatial genetic analyses of mobile and continuously distributed species.

Exploring Game Performance in the National Basketball Association Using Player Tracking Data

Recent player tracking technology provides new information about basketball game performance. The aim of this study was to (i) compare the game performances of all-star and non all-star basketball players from the National Basketball Association (NBA), and (ii) describe the different basketball game performance profiles based on the different game roles. Archival data were obtained from all 2013-2014 regular season games (n = 1230). The variables analyzed included the points per game, minutes played and the game actions recorded by the player tracking system. To accomplish the first aim, the performance per minute of play was analyzed using a descriptive discriminant analysis to identify which variables best predict the all-star and non all-star playing categories. The all-star players showed slower velocities in defense and performed better in elbow touches, defensive rebounds, close touches, close points and pull-up points, possibly due to optimized attention processes that are key for perceiving the required appropriate environmental information. The second aim was addressed using a k-means cluster analysis, with the aim of creating maximal different performance profile groupings. Afterwards, a descriptive discriminant analysis identified which variables best predict the different playing clusters. The results identified different playing profile of performers, particularly related to the game roles of scoring, passing, defensive and all-round game behavior. Coaching staffs may apply this information to different players, while accounting for individual differences and functional variability, to optimize practice planning and, consequently, the game performances of individuals and teams.

Análise morfométrica das estruturas maxilo-mandibulares de indivíduos pré-colombianos e contemporâneos da Costa Central do Peru

O objetivo deste trabalho foi avaliar morfometricamente as modificações ocorridas ao longo de 500 anos nas estruturas maxilo-mandibulares de indivíduos da Costa Central do Peru. Foram utilizadas telerradiografias laterais de 30 crânios secos, sem deformidades esqueléticas e em normoclusão, do período Pré-colombiano (grupo Pré-colombiano) e de 30 peruanos nativos contemporâneos, com características esqueléticas e oclusais semelhantes, provenientes da mesma região geográfica (grupo Contemporâneo). Estas telerradiografias foram digitalizadas e 14 pontos cefalométricos foram marcados e utilizados como marcos anatômicos homólogos para a análise morfométrica. O tamanho do centróide, a forma e a alometria foram comparados entre os grupos para a amostra total, para homens e para mulheres, pelos testes de one-way ANOVA, função discriminante e regressão multivariada, respectivamente. As mesmas avaliações foram realizadas para homens e mulheres do mesmo grupo. O tamanho do centróide foi significativamente maior para o grupo Contemporâneo tanto para a amostra total, quanto para homens e mulheres, demonstrando que as estruturas maxilo-mandibulares dos indivíduos contemporâneos é maior do que de seus ancestrais. Quando homens e mulheres foram comparados intra-grupos o tamanho do centróide foi significativamente maior para os homens do grupo Contemporâneo, com a mesma tendência para os homens pré-colombianos, porém sem significância estatística. Observou-se diferenças significativas entre os grupos para a forma das estruturas maxilo-mandibulares indicando que ao longo do tempo houve um deslocamento posterior da região da pré-maxila e um deslocamento considerável para cima e para trás da apófise coronóide, uma abertura do ângulo na região goníaca e um alongamento no sentido vertical da região da sínfise mandibular. Essas mudanças morfológicas foram mais evidentes nas mulheres do que nos homens, parecendo haver maior efeito das tendências seculares nas mulheres. Não houve diferenças morfológicas entre homens e mulheres quando comparados intra-grupos, demonstrando que os resultados observados não foram influenciados pelo dimorfismo sexual. As diferenças de tamanho existentes intra-grupos foram responsáveis por apenas 6% das diferenças de forma, e portanto não há efeito causal do tamanho sobre as diferenças de forma observadas entre os grupos. Pode-se concluir que as diferenças morfológicas das estruturas maxilo-mandibulares encontradas neste estudo sugerem mudanças nas condições ambientais da população da Costa Central do Peru ao longo de 500 anos e podem contribuir para o melhor esclarecimento dos fatores etiológicos das más oclusões.

Utilização de indicadores Contábeis em Modelos de Previsão de Insolvência: Um estudo Comparativo entre indicadores Tradicionais e indicadores do Modelo Dinâmico

Um dos temas mais estudados na área de finanças, em especial na análise de créditos, são os modelos que buscam prever a capacidade das empresas em se manterem solventes. Via de regra, tais estudos buscam, dentre vários indicadores, aqueles que se mostram mais apropriados para realizar tal predição. Nesse trabalho propõe-se um outro olhar sobre os modelos de previsão. Partindo de modelos já consagrados na literatura, escolheram-se os indicadores contábeis mais utilizados, que foram comparados, através da Análise Discriminante e da Regressão Logística, com os indicadores oriundos do Modelo Dinâmico. O objetivo do estudo foi verificar se os indicadores do Modelo Dinâmico oferecem melhores resultados que os indicadores tradicionais. O trabalho se baseia numa amostra com 48 empresas, composta de 24 insolventes e as outras 24 ditas como saudáveis, tratadas como pares das insolventes, escolhidas dentro do mesmo setor econômico de cada uma das insolventes. Além disso, foi incluída no estudo a classificação de empresas de Fleuriet como variável qualitativa. Os resultados obtidos não apresentam evidências sobre a superioridade de um ou outro conjunto de indicadores, mas, os melhores resultados alcançados derivam da inclusão da classificação de empresas de Fleuriet, seja através da Análise Discriminante, seja através da Regressão Logística, conseguindo no melhor dos resultados, um percentual de acerto total de 83,3%. A análise minuciosa dos erros de classificação ensejou uma proposta de reordenação dos tipos de situação de liquidez originalmente propostos por Fleuriet.

判别分析系统应运于生物标本鉴定的初步研究

计算机技术和数学方法、手段应用于生物标本鉴定的研究工作在国外开展已有多年，但在国内却并没有许多人涉猎，也没有受到足够的重视。 鉴于这一领域的重要性及其实际意义，本文综合、扩充、改进了多元统计判别分析和模糊模式识别中的多种定量化判别方法，初步在计算机上实现了一个可用于生物标本鉴定或其它与判别、识别有关方面的系统，并将其用于桔梗科沙参属三个种：泡沙参、多歧沙参和裂叶沙参及菖蒲科中两个种的标本鉴定上面，获得了比较满意的判别效果。同时，为了弥补数量化标本鉴定的不足，本文作者还设计开发了一个描述性的基于检索表的人机交互式的标本鉴定模块。另外，本系统还包括模糊系统聚类和典型相关分析等模块，可供生物分类及其它定量分析运算时选用。 对于以上各种判别、识别方法的差异及优劣，文中根据实例做出了综合分析和比较，并认为在所有方法当中，逐步判别法和模糊协方差识别法最适宜于生物标本鉴定之用。最后，作者展望了未来计算机用于生物标本鉴定的前景。

Using measurements of muscle cell nuclear RNA with flow cytometry to improve assessment of larval condition of Walleye Pollock (Gadus chalcogrammus)

Nuclear RNA and DNA in muscle cell nuclei of laboratory-reared larvae of Walleye Pollock (Gadus chalcogrammus) were simultaneously measured through the use of flow cytometry for cell-cycle analysis during 2009–11. The addition of nuclear RNA as a covariate increased by 4% the classification accuracy of a discriminant analysis model that used cell-cycle, temperature, and standard length to measure larval condition, compared with a model without it. The greatest improvement, a 7% increase in accuracy, was observed for small larvae (<6.00 mm). Nuclear RNA content varied with rearing temperature, increasing as temperature decreased. There was a loss of DNA when larvae were frozen and thawed because the percentage of cells in the DNA synthesis cell-cycle phase decreased, but DNA content was stable during storage of frozen tissue.

中药青蒿萜类代谢物谱分析及青蒿素生物合成的研究

青蒿素是从中药青蒿，学名黄花蒿（Artemisia annua L.）植物地上部分分离出的抗疟疾有效单体，为一种倍半萜内酯类化合物，其生物合成途径属于植物类异戊二烯代谢途径。青蒿素生物合成途径及其调控机制仍不完全清楚，本论文采用GC-MS 和GC×GC-TOFMS 方法对青蒿萜类代谢物谱进行检测，用多维统计学方法对检测结果进行整理和比较分析，研究青蒿素生物合成及其与青蒿中其他萜类代谢的关系，取得了以下结果： 一、通过GC×GC-TOFMS 方法对青蒿挥发油成分进行分析，共鉴定出303 种组分。其中挥发油中相对百分含量大于1%的10 种组分中有9 种为萜类化合物，含量接近总挥发油的50%。在相对百分含量大于0.1%的49 种成分中，有30 种萜类化合物。有27 种相对百分含量大于0.1%的成分首次在青蒿挥发油中报道，其中包括10 种萜类化合物。 二、利用GC-MS 方法分析了青蒿001 和SP18 两个青蒿素高产株系不同生长时期萜类代谢物谱，结果表明：青蒿中萜类化合物在不同时期合成和积累是动态变化的，萜类化合物的种类和数量在营养生长期随生长时间的延长而提高，在营养生长后期和现蕾前期达到最高水平，进入生殖生长后随生长时间的延长而迅速降低。通过多维统计PLS-DA（Partial Leasted Square Discriminant Analysis） 分析，确定001 中有17 个化合物的含量在不同生长时期有明显变化，其中15 个为萜类化合物。SP18 中有18 个化合物的含量在不同生长时期有明显变化，其中16 个为萜类化合物。青蒿素，青蒿酸，二氢青蒿酸，青蒿素B 都是含量变化明显的标记物。其中青蒿酸和二氢青蒿酸含量在营养生长后期达到最高水平，进入生殖生长后迅速下降，而青蒿素和青蒿素B 在整个检测时期含量变化相对较小，在营养生长时期含量已经较高，在现蕾前期含量稍有上升，进入现蕾期后有所下降，本研究确定现蕾前期为代谢物谱分析最佳取样时期，并为药材采收提供指导。 三、不同基因型青蒿代谢物谱研究表明，青蒿素高产株系SP18 和001 代谢物表现出一定的差异，通过多维统计PLS-DA 分析，共找出了22 种在两种基因型中差异明显的化合物，其中包括倍半萜化合物12 种，单萜化合物3 种，三萜化合物4 种。SP18 特征化合物为樟脑和两个未鉴定倍半萜化合物，而001 特征化合物是龙脑和β-法呢烯。另外两种基因型中青蒿素及相关前体化合物的积累模式差异明显，SP18 中二氢青蒿酸和青蒿素含量高，而青蒿酸和青蒿素B 含量极低；001 中二氢青蒿酸和青蒿素含量相对SP18 要低，但青蒿素B 和青蒿酸含量比SP18 要高。该结果表明在青蒿素高产株系中，青蒿素含量与二氢青蒿酸的含量呈正相关，结合Brown 等的活体标记研究结果分析，从二氢青蒿酸到青蒿素的转化可能是青蒿素合成的限速步骤。 四、利用GC×GC-TOFMS 方法对转基因青蒿萜类代谢物谱进行了分析，共对200 个左右化合物峰进行PLS-DA 和OSC-PLS (Orthogonal Signal Correction–Partial leasted Square)多维统计分析，结果表明：青蒿萜类代谢物谱在外源基因转入后发生显著变化，与对照株系相比均呈现显著差异。其中过量表达Amorpha-4,11-diene 合酶基因（ads）株系中青蒿素及相关化合物变化最明显，而过量表达FPP 合酶基因（fps）株系中青蒿素及相关化合物变化相对较小，在受到调控而成为差异标记物的化合物中，70%是倍半萜类化合物。 五、考察了外源茉莉酸甲酯对青蒿素生物合成的影响，结果表明：300 μM 外源茉莉酸甲酯能提高青蒿素含量，在处理后第8 天青蒿素含量提高38%。青蒿萜类代谢物谱研究表明，茉莉酸甲酯不仅可以诱导青蒿中青蒿素的合成，还能诱导很多化合物，特别是倍半萜和三萜类的合成。OSC-PLS 分析结果找出了9 个处理后含量明显提高的标记物，其中6 个倍半萜化合物，3 个三萜化合物。标记物鲨烯含量提高了67%，另一个未鉴定出结构的倍半萜提高了60%，这些化合物可能与青蒿素有着类似的调控机制，而外源喷洒茉莉酸甲酯可以作为提高青蒿素产量的有效途径之一。

Plasma biochemical responses of the planktivorous filter-feeding silver carp (Hypophthalmichthys molitrix) and bighead carp (Aristichthys nobilis) to prolonged toxic cyanobacterial blooms in natural waters

The planktivorous filter-feeding silver carp (Hypophthalmichthys molitrix) and bighead carp (Aristichthys nobilis) are the attractive candidates for bio-control of plankton communities to eliminate odorous populations of cyanobacteria. However, few studies focused on the health of such fishes in natural water body with vigorous toxic blooms. Blood parameters are useful and sensitive for diagnosis of diseases and monitoring of the physiological status of fish exposed to toxicants. To evaluate the impact of toxic cyanobacterial blooms on the planktivorous fish, 12 serum chemistry variables were investigated in silver carp and bighead carp for 9 months, in a large net cage in Meiliang Bay, a hypereutrophic region of Lake Taihu. The results confirmed adverse effects of cyanobacterial blooms on two phytoplanktivorous fish, which mainly characterized with potential toxicogenomic effects and metabolism disorders in liver, and kidney dysfunction. In addition, cholestasis was intensively implied by distinct elevation of all four related biomarkers (ALP, GGT, DBIL, TBIL) in bighead carp. The combination of LDH, AST activities and DBIL, URIC contents for silver carp, and the combination of ALT. ALP activities and TBIL, DBIL. URIC concentrations for bighead carps were found to most strongly indicate toxic effects from cyanobacterial blooms in such fishes by a multivariate discriminant analysis. (C) 2009 Elsevier B.V. All rights reserved.