Correlation‐assisted nearest shrunken centroid classifier with applications for high dimensional spectral data

High throughput data are frequently observed in contemporary chemical studies. Classification through spectral information is an important issue in chemometrics. Linear discriminant analysis (LDA) fails in the large‐p‐small‐n situation for two main reasons: (1) the sample covariance matrix is singular when p > n and (2) there is an accumulation of noise in the estimation of the class centroid in high dimensional feature space. The Independence Rule is a class of methods used to overcome these drawbacks by ignoring the correlation information between spectral variables. However, a strong correlation is an essential characteristic of spectral data. We proposed a new correlation‐assisted nearest shrunken centroid classifier (CA‐NSC) to incorporate correlation information into the classification. CA‐NSC combines two sources of information [class centroid (mean) and correlation structure (variance)] to generate the classification. We used two real data analyses and a simulation study to verify our CA‐NSC method. In addition to NSC, we also performed a comparison with the soft independent modeling of class analogy (SIMCA) approach, which uses only correlation structure information for classification. The results show that CA‐NSC consistently improves on NSC and SIMCA. The misclassification rate of CA‐NSC is reduced by almost half compared with NSC in one of the real data analyses. Generally, correlation among variables will worsen the performance of NSC, even though the discriminatory information contained in the class centroid remains unchanged. If only correlation structure information is used (as in the case of SIMCA), the result will be satisfactory only when the correlation structure alone can provide sufficient information for classification. Copyright © 2015 John Wiley & Sons, Ltd.     

Genetic Bee Colony (GBC) algorithm: A new gene selection method for microarray cancer classification

Naturally inspired evolutionary algorithms prove effectiveness when used for solving feature selection and classification problems. Artificial Bee Colony (ABC) is a relatively new swarm intelligence method. In this paper, we propose a new hybrid gene selection method, namely Genetic Bee Colony (GBC) algorithm. The proposed algorithm combines the used of a Genetic Algorithm (GA) along with Artificial Bee Colony (ABC) algorithm. The goal is to integrate the advantages of both algorithms. The proposed algorithm is applied to a microarray gene expression profile in order to select the most predictive and informative genes for cancer classification. In order to test the accuracy performance of the proposed algorithm, extensive experiments were conducted. Three binary microarray datasets are use, which include: colon, leukemia, and lung. In addition, another three multi-class microarray datasets are used, which are: SRBCT, lymphoma, and leukemia. Results of the GBC algorithm are compared with our recently proposed technique: mRMR when combined with the Artificial Bee Colony algorithm (mRMR-ABC). We also compared the combination of mRMR with GA (mRMR-GA) and Particle Swarm Optimization (mRMR-PSO) algorithms. In addition, we compared the GBC algorithm with other related algorithms that have been recently published in the literature, using all benchmark datasets. The GBC algorithm shows superior performance as it achieved the highest classification accuracy along with the lowest average number of selected genes. This proves that the GBC algorithm is a promising approach for solving the gene selection problem in both binary and multi-class cancer classification.     

Random forests for functional covariates

We propose a form of random forests that is especially suited for functional covariates. The method is based on partitioning the functions' domain in intervals and using the functions' mean values across those intervals as predictors in regression or classification trees. This approach appears to be more intuitive to applied researchers than usual methods for functional data, while also performing very well in terms of prediction accuracy. The intervals are obtained from randomly drawn, exponentially distributed waiting times. We apply our method to data from Raman spectra on boar meat as well as near‐infrared absorption spectra. The predictive performance of the proposed functional random forests is compared with commonly used parametric and nonparametric functional methods and with a nonfunctional random forest using the single measurements of the curve as covariates. Further, we present a functional variable importance measure, yielding information about the relevance of the different parts of the predictor curves. Our variable importance curve is much smoother and hence easier to interpret than the one obtained from nonfunctional random forests.     

统计模型在中文文本挖掘中的应用

本文讨论了中文文本挖掘的三个问题:分词、关键词提取和文本分类。对分词问题,介绍了基于层叠隐马尔可夫模型的ICTCLAS分词法,以及将词与词之间的分隔视为缺失数据并用EM算法求解的WDM方法;对关键词提取问题,提出了贝叶斯因子法,并介绍了使用稀疏回归的CCS方法;对文本分类问题,介绍了根据关键词频率建立分类器的方法,以及先建立主题模型再根据主题概率建立分类器的方法。本文通过两组文本数据对上述方法进行比较,并给出使用建议。     

Classification of edges using compactly supported shearlets

We analyze the detection and classification of singularities of functions $f={\chi }_S$, where $S?{\mathbb{R}}^d$ and $d=2,3$. It will be shown how the set ?S can be extracted by a continuous shearlet transform associated with compactly supported shearlets. Furthermore, if ?S is a $d?1$ dimensional piecewise smooth manifold with $d=2$ or 3, we will classify smooth and non-smooth components of ?S. This improves previous results given for shearlet systems with a certain band-limited generator, since the estimates we derive are uniform. Moreover, we will show that our bounds are optimal. Along the way, we also obtain novel results on the characterization of wavefront sets in 3 dimensions by compactly supported shearlets. Finally, geometric properties of ?S such as curvature are described in terms of the continuous shearlet transform of f.     

STEAM教育跨学科思维评价研究——基于化学师范生的实证分析

跨学科思维是个体在解决复杂问题时,基于学科知识间的内在联系寻找问题解决方案的思维方式。基于SOLO分类理论和STEM教育的“融合斜面”构建跨学科思维评价框架,采用NVivo12分析软件依据“STEAM金字塔结构框架”对93位化学师范生的STEAM项目的任务分解资料进行编码和统计,分析化学师范生跨学科思维发展水平。以期为进一步寻求化学师范生跨学科思维高水平发展的策略提供参考。     

农林院校校外实验教学基地分类考评机制及考评指标改革研究——大学化学校外实践基地实证分析*

针对大学化学校外实践教学基地建设和运行过程中的基地与高校的协同管理机制,实践教学基地软硬条件建设和资源配置及实践教学与理论学习的连贯性等问题,在OBE理论指导下,探究分类考核机制,在实证中构建分层次考评模型及考评指标,并建立适合于农林高校的化学校外实践教学基地的分类考评指标体系。     

Identification of key classification features of early cervical squamous cell carcinoma

Despite the tremendous progress in molecular analysis of pan-cancer, little is known regarding molecular classification of cervical squamous cell carcinoma. In this study, we adopted a multi-omics approach to identify potential key classification features of cervical squamous cell carcinoma. Specifically, we analyzed mRNA, and microRNA (miRNA) expression data, as well as DNA methylation and copy number variation in cervical squamous cell carcinoma cases, using datasets obtained from The Cancer Genome Atlas (TCGA). Moreover, we identified molecules in each dimension, as well as integrated and clustered filtered classification features, and used them to distinguish different subtypes. The resulting key classification features were used to establish a classification model for cervical squamous cell carcinoma. Our results revealed two cervical squamous cell carcinoma subtypes, with significant differences across clinical survival levels, as well as 8 key classification features of cervical squamous cell carcinomas. These findings are expected to provide important references for early classification of cervical squamous cell carcinoma and identification of classification markers.     

Classification of nasopharyngeal cell lines (C666-1, CNE2, NP69) via Raman spectroscopy and decision tree

Researchers have demonstrated that Raman spectroscopy can be used for characterization of tumor cells with excellent spatial resolution. However, performance evaluation of different algorithms in classifying multiclass of Raman spectra has not been reported yet. In this work, we present Raman spectra of nasopharyngeal carcinoma and nasopharyngeal normal cell lines. Combined with student’s t-test and several multivariate approaches, including decision tree, support vector classification, and linear discriminant analysis, our work shows that the relative content of two histological abnormality sensitive bands at 1449 and 1658 cm⁻¹ in tumor cells is significantly different from that of normal cells (p = 0.0132), and can be a biomarker to classify these cells. This difference is confirmed by importance analyses in the decision tree model. Furthermore, performances of statistical methods are compared with one another to explore the ability in classification. Results show that the decision tree can be more capable for classification between tumorous and normal cell lines with sensitivity and specificity of 99.0% and 96.9%, respectively. Findings of this work further support our previous work and indicate that the decision tree performs more robustly in cell classification. Our work will prove helpful to the early diagnosis of nasopharyngeal carcinoma, and will indicate the decision tree to be the primary algorithm in tumor-cell classification.     

楔形体破坏模式下红层边坡岩体质量SMR法评价

简要介绍了边坡岩体质量分类的SMR法,将之应用于2个典型楔形体破坏模式下红层岩体高边坡稳定性宏观评价。 指出在评价过程中要注意对边坡起控制作用的优势结构面,并将其作为SMR法中结构面项评分的主要依据,这样得出的评分 值与边坡的实际情况才会比较相符。对地应力的影响进行了定性的分析,指出高地应力地区边坡SMR法应该慎用。