Random frog: An efficient reversible jump Markov Chain Monte Carlo-like approach for variable selection with applications to gene selection and disease classification

The identification of disease-relevant genes represents a challenge in microarray-based disease diagnosis where the sample size is often limited. Among established methods, reversible jump Markov Chain Monte Carlo (RJMCMC) methods have proven to be quite promising for variable selection. However, the design and application of an RJMCMC algorithm requires, for example, special criteria for prior distributions. Also, the simulation from joint posterior distributions of models is computationally extensive, and may even be mathematically intractable. These disadvantages may limit the applications of RJMCMC algorithms. Therefore, the development of algorithms that possess the advantages of RJMCMC methods and are also efficient and easy to follow for selecting disease-associated genes is required. Here we report a RJMCMC-like method, called random frog that possesses the advantages of RJMCMC methods and is much easier to implement. Using the colon and the estrogen gene expression datasets, we show that random frog is effective in identifying discriminating genes. The top 2 ranked genes for colon and estrogen are Z50753, U00968, and Y10871_at, Z22536_at, respectively. (The source codes with GNU General Public License Version 2.0 are freely available to non-commercial users at: http://code.google.com/p/randomfrog/.)     

三维荧光光谱的特征区域选择方法

将数学中的二元凸函数判定和数据挖掘中的聚类分析方法结合,提出了针对三维荧光的光谱区域选择方法,并利用此种方法从光谱图中提取出含有丰富光谱信息的凸集区域。对水体中总有机碳的检测和白酒中黄曲霉素的检测进行了实验研究,实验结果表明,采用本文提出的三维荧光光谱区域选择方法提高了模型的精度,与利用全光谱所建立的回归模型相比,模型精度分别提高了6.17%和4.97%。     

Single-Round DNA Aptamer Selection by Combined Use of Capillary Electrophoresis and Next Generation Sequencing: An Aptaomics Approach for Identifying Unique Functional Protein-Binding DNA Aptamers

In DNA aptamer selection, existing methods do not discriminate aptamer sequences based on their binding affinity and function and the reproducibility of the selection is often poor, even for the selection of well-known aptamers like those that bind the commonly used model protein thrombin. In the present study, a novel single-round selection method (SR-CE selection) was developed by combining capillary electrophoresis (CE) with next generation sequencing. Using SR-CE selection, a successful semi-quantitative and semi-comprehensive aptamer selection for thrombin was demonstrated with high reproducibility for the first time. Selection rules based on dissociation equilibria and kinetics were devised to obtain families of analogous sequences. Selected sequences of the same family were shown to bind thrombin with high affinity. Furthermore, data acquired from SR-CE selection was mined by creating sub-libraries that were categorized by the functionality of the aptamers (e. g., pre-organized aptamers versus structure-induced aptamers). Using this approach, a novel fluorescent molecular recognition sensor for thrombin with nanomolar detection limits was discovered. Thus, in this proof-of-concept report, we have demonstrated the potential of a “DNA Aptaomics” approach to systematically design functional aptamers as well as to obtain high affinity aptamers.     

食品中合成色素快速检测仪器的研制

基于人工合成色素在可见光区的光吸收及偏最小二乘变量筛选法,研制出合成色素速测仪器,并应用于饮料、糖果、果冻、调色酒等食品中合成色素的快速检测.速测仪具有便携、功耗低、操作简便、检测时间短并可同时对多种人工合成色素进行实时现场快速检测、检测结果准确等优点.对样品中5种食用合成色素柠檬黄、日落黄、胭脂红、苋菜红和亮蓝的检测...     

基于支持向量机的高维特征非线性快速筛选与肽QSAR建模

以氨基酸的531个物理化学性质参数直接表征肽的结构, 基于支持向量回归发展了一种新的高维特征非线性快速筛选方法, 将其应用于苦味二肽和血管紧张素转化酶抑制剂2个肽体系的定量序效关系(QSAR)建模, 各筛选获得10个意义明确的保留描述子. 以保留描述子建立支持向量回归模型, 其拟合精度、留一法交叉测试精度和外部预测精度较文献报道结果均有较大幅度提升, 优势明显; 对所建模型进行了非线性回归显著性测验、单因子相对重要性显著性测验和单因子效应分析, 增强了模型的可解释性. 新方法在肽、蛋白质QSAR建模等高维数据回归预测领域有广泛应用前景.     

Comprehensive two‐dimensional gas chromatography coupled with static headspace sampling to analyze volatile compounds: Application to almonds

The hyphenation of static headspace sampling with comprehensive 2D GC equipped with a modulator based on capillary flow technology and a flame ionization detector was used to separate and identify 43 representative target volatile compounds (light hydrocarbons, carbonyls, pyrazines, alcohols, furans, and benzenes) frequently detected in the roasting process of nuts. Five column combinations with differing degrees of orthogonality (one conventional and four inverted phase sets) were tested in order to obtain the best conditions for analyzing these volatile compounds. Optimization of the working conditions for each of the different column combinations was performed by means of a central composite design. The best results in terms of separation and differentiation among the different chemical groups were achieved with a combination of inverted phase columns (first dimension: highly polar, INNOWax; second dimension: mid‐polar, ZB‐35). Additionally, a reference template was developed to provide an effective and rapid analysis of the target compounds. Finally, the proposed method was successfully employed to identify volatile compounds in raw and roasted almond samples from the Spanish cultivar Largueta.     

Automated in-syringe single-drop head-space micro-extraction applied to the determination of ethanol in wine samples

A novel approach of head-space single-drop micro-extraction applied to the determination of ethanol in wine is presented. For the first time, the syringe of an automated syringe pump was used as an extraction chamber of adaptable size for a volatile analyte. This approach enabled to apply negative pressure during the enrichment step, which favored the evaporation of the analyte. Placing a slowly spinning magnetic stirring bar inside the syringe, effective syringe cleaning as well as mixing of the sample with buffer solution to suppress the interference of acetic acid was achieved.     

基于局部轮廓特征的无人机头部检测跟踪算法

针对无人机的结构特点,提出了一种基于目标轮廓提取、轮廓自动分段、头部定位以及头部模板匹配四个模块的目标头部检测跟踪算法.首先对第一帧图像提取目标轮廓,并通过计算轮廓点的变化率,对轮廓进行自动分段,得到目标的4个局部轮廓点列,进而根据头部轮廓点列的特点,完成头部轮廓筛选,然后利用基于目标中轴的二次曲线拟合,实现头部顶点的...     

Investigation of morphology selection for CBr_4-C_2Cl_6 alloy in three dimensions with multi-phase field method

With the multi-phase field model, the unidirectional solidification with constant velocity growth and variable velocity growth of the CBr4-C2Cl6 eutectic alloy is simulated in three dimensions. The simulated results with constant velocity growth show that with the increase of pulling velocity, the morphology of the CBr4-C2Cl6 alloy evolves in the sequence of lamellar merging →lamellar-rod transition→stable lamellar growth→oscillating growth→lamellar branching. A morphology selection map is established with ...     

Reputation-based network selection mechanism using game theory

Current and future wireless environments are based on the coexistence of multiple networks supported by various access technologies deployed by different operators. As wireless network deployments increase, their usage is also experiencing a significant growth. In this heterogeneous multi-technology multi-application multi-terminal multi-user environment users will be able to freely connect to any of the available access technologies. Network selection mechanisms will be required in order to keep mobile users “always best connected” anywhere and anytime. In such a heterogeneous environment, game theory techniques can be adopted in order to understand and model competitive or cooperative scenarios between rational decision makers. In this work we propose a theoretical framework for combining reputation-based systems, game theory and network selection mechanism. We define a network reputation factor which reflects the network’s previous behaviour in assuring service guarantees to the user. Using the repeated Prisoner’s Dilemma game, we model the user–network interaction as a cooperative game and we show that by defining incentives for cooperation and disincentives against defecting on service guarantees, repeated interaction sustains cooperation.