Predicting protein structural classes with pseudo amino acid composition: an approach using geometric moments of cellular automaton image

A novel approach was developed for predicting the structural classes of proteins based on their sequences. It was assumed that proteins belonging to the same structural class must bear some sort of similar texture on the images generated by the cellular automaton evolving rule [Wolfram, S., 1984. Cellular automation as models of complexity. Nature 311, 419-424]. Based on this, two geometric invariant moment factors derived from the image functions were used as the pseudo amino acid components [Chou, K.C., 2001. Prediction of protein cellular attributes using pseudo amino acid composition. Proteins: Struct., Funct., Genet. (Erratum: ibid., 2001, vol. 44, 60) 43, 246-255] to formulate the protein samples for statistical prediction. The success rates thus obtained on a previously constructed benchmark dataset are quite promising, implying that the cellular automaton image can help to reveal some inherent and subtle features deeply hidden in a pile of long and complicated amino acid sequences.     

基于改进型组织特异纹理滤波器的乳腺肿瘤超声图像处理

基于乳腺超声图像的多参数纹理分类实验,改进了Gjenna Sfippel等的自适应纹理滤波器,通过引入模糊函数、增加重叠区域和迭代次数的措施,在减少图像噪声的同时,增强肿瘤与周围正常组织的视觉差别。量化比较乳腺超声图像经该滤波算法和几种常用滤波算法处理前后的的统计特征参量和肿瘤边缘检测的精确率,验证了该算法的有效性和优越性。     

Molecular genetics of puroindolines and related genes: regulation of expression,membrane binding properties and applications

Kernel texture of wheat is a primary determinant of its technological properties. Soft kernel texture phenotype results when the Puroindoline a and Puroindoline b genes are present and encode the wild-type puroindolines PINA and PINB, respectively, and various mutations in either or both gene(s) result in hard phenotypes. A wealth of information is now available that furthers our understanding regarding the spatial and temporal regulation of expression of Puroindoline genes. Through the use of model membranes and synthetic peptides we also have a clearer understanding of the significance of the cysteine backbone, the tryptophan-rich domain (TRD) and the helicoid tertiary structures of PIN proteins in relation to their membrane-active properties. Many studies suggest individual yet co-operative modes of action of the PIN proteins in determining kernel texture, and significant evidence is accumulating that the proteins have in vivo and in vitro antimicrobial activities, shedding light on the biological roles of this unique ensemble of proteins. The puroindolines are now being explored for grain kernel texture modifications as well as antimicrobial activities.     

Textural fingerprints: a comprehensive descriptor for biofilm structure development

Automated tools to determine biofilm structure are necessary to interpret large time series of biofilm images. Image analysis based on the evaluation of Spatial Gray Level Dependence Matrices (SGLDM) enabled us to monitor biofilm structure development in response to external disturbances (i.e., periodic increases of wall shear stress) at a large scale (i.e., >1 mm). We applied our method to an experiment conducted in an annular reactor over a 10-week period. Six states of biofilm development were differentiated by their unique structure. Previous exposure to rapidly increased shear influenced the resulting biofilm structure after additional shear increases. In addition, on the scale of the biofilm images, the biofilm structure after a shear increase was spatially heterogeneous and resulted in spatially differentiated regrowth after detachment at different locations in the biofilm. SGLDM was developed further as an alternative to approaches based on image binarization as binarization leads to information loss for low-magnification and low-resolution images. During post-processing of image data, structural states of biofilm development were identified by K-means clustering and data display in Principal Component plots. Quantitatively selected representative images were used to illustrate the meaning of the clusters. Post-treatment of image data was essential for managing several thousands of raw biofilm images and therefore improved the usefulness of the image analysis.     

南美鲱鱼的含肉率及肌肉营养评价

测定了 6尾南美鲱鱼的含肉率及其营养成分 ,并对其营养价值进行综合评定。该鱼 (鲜样 )含肉率 83.6 5 % ;肌肉中含粗蛋白 1 7 74 % ,粗脂肪 5 2 5 % ,粗灰分 1 0 2 % ,水分 74 73% ,无氮浸出物 1 2 6 %。干物质中水解氨基酸总量 70 36 % ,其中必需氨基酸 2 7 90 % ,占氨基酸总量的 39 6 5 % ;游离氨基酸总量1 2 6 5 1 8mg 1 0 0g;必需氨基酸指数为 4 0 33;矿物质含量丰富 ,尤其是硒。认为南美鲱鱼是一种营养价值和养殖价值都比较高的淡水养殖新品种 ,具有良好的开发利用前景。     

Characterization of Food Physical Properties by the Mastication Parameters Measured by Electromyography of the Jaw-Closing Muscles and Mandibular Kinematics in Young Adults

The relationship between the physical properties of solid food and the masticatory parameters is clarified. Eight solid foods of varying physical properties were chosen. Electromyography of the jaw-closing muscles and mandibular kinematics in eleven young subjects were recorded. The masticatory parameters were derived from the recorded data for the entire mastication process, for the first bite, and in the early, middle, and late stages of mastication. After calculating values relative to the mean value for each subject, nine parameters representing each group were chosen through a cluster analysis. Three principal components were extracted, each of them related to the masticatory time and cycle, minimum jaw opening at the early stage of mastication, and masticatory force. The principal component scores for each food were different, except for one combination in which the physical properties under large and extra-large deformations were similar, despite different breaking properties or small deformation properties. The masticatory parameters did not correlate with the physical properties of food measured for small deformation.     

Does rock chemistry affect periphyton accrual in streams?

Stones of different rock types often accrue different amounts of periphytic algae. Although algal biomass may be positively related to stone roughness, the confounding role of rock chemistry is unclear. This independent effect of rock chemistry on benthic algae was tested using the nutrient-diffusing technique, by incorporating powdered stone, rather than nutrients, into the agar matrix. Rocks tested were sandstone, obsidian, schist, greywacke, pumice, gypsum, limestone, serpentine, and phosphorite. Petri-dishes containing powdered rock and agar, and covered with a permeable cellulose filter, were incubated in eight pools in a granitic stream. Algal biomass did not differ among any of the nine rock types and plain agar control, whereas biomass differed among the concurrently placed nutrient diffusing substrates (the stream was phosphorus-limited). Algal composition was more related to an upstream-downstream gradient (for filamentous algae) and pool-specific effects (deposition of fine sediment for diatoms) than rock chemistry. This minimal effect of rock chemistry may be caused by the low dissolution rate of stones. Handling editor: J. Padisak     

Plant functional trait variation in relation to riparian geomorphology: The importance of disturbance

This study examined the patterns of plant functional trait variation in relation to geomorphology, disturbance and a suite of other environmental factors in the riparian margin of the Upper Hunter River, New South Wales, Australia. Vegetation was surveyed on three geomorphic surfaces (point bar, bench and bank) along a 5.5‐km stretch of the Upper Hunter River. Functional traits relating to plant growth and reproduction were collected for the identified species. anova and principal components analysis were used to compare the trait assemblages of species associated with each geomorphic unit. Pearson's correlation coefficients were used to investigate trait variation with respect to environmental variables. There were clear differences in the plant functional trait assemblages associated with the three geomorphic units. Generally the point bar was associated with species that were herbaceous, with small seed mass, a short stature and a high specific leaf area (SLA). Conversely, the bench was associated with grasses that had unassisted seed dispersal and intermediate seed mass and SLA, while species on the bank had tall stature, large seed mass, a high SLA and a perennial life cycle. Variation along the primary gradient of plant functional trait composition was most strongly related to disturbance frequency and to a lesser extent soil nutrients and the proportion of clay and silt, while variation along the secondary gradient was associated with variation in substrate texture as well as soil nutrients.