基于多阶导数拉曼光谱组合技术的矿物油模式分类

为了实现对法庭科学领域重质矿物油物证的快速、准确、无损的鉴定,该文基于光谱分析技术提出了一种多阶导数光谱数据组合分析的方法。收集了80种不同型号、不同厂家的重质矿物油样本,利用傅里叶变换拉曼光谱分析法采集样本的原始光谱数据和导数光谱数据,并通过结合化学计量学构建分类模型。在构建的主成分分析(PCA)结合径向基函数神经网络(RBF)分类模型中,对单独的原始光谱、一阶导数谱和二阶导数谱数据的训练集准确率分别为80.0%、86.7%和86.2%,测试集准确率分别为73.3%、80.0%和72.7%;对组合后的原始光谱+一阶导数谱、原始光谱+二阶导数谱和一阶导数谱+二阶导数谱数据的分类中,训练集准确率分别为97.0%、96.7%和100%,测试集准确率分别为85.7%、90.0%和100%。结果表明,对组合后的导数光谱与原始光谱构建分类模型,准确率更高。其中,基于一阶导数谱+二阶导数谱数据构建的PCA结合RBF分类模型的结果最为理想,准确率达100%。而K最近邻算法模型由于受到样本不均匀的影响,整体分类准确率均较低。利用组合的导数光谱与原始光谱数据构建分类模型能够实现对重质矿物油样本的快速、准确、无损鉴别,可为光谱组合技术在法庭科学及其他分析测试领域的应用提供一定的借鉴和参考。     

The Classification of Rice Blast Resistant Seed Based on Ranman Spectroscopy and SVM

Rice blast is a serious threat to rice yield. Breeding disease-resistant varieties is one of the most economical and effective ways to prevent damage from rice blast. The traditional identification of resistant rice seeds has some shortcoming, such as long possession time, high cost and complex operation. The purpose of this study was to develop an optimal prediction model for determining resistant rice seeds using Ranman spectroscopy. First, the support vector machine (SVM), BP neural network (BP) and probabilistic neural network (PNN) models were initially established on the original spectral data. Second, due to the recognition accuracy of the Raw-SVM model, the running time was fast. The support vector machine model was selected for optimization, and four improved support vector machine models (ABC-SVM (artificial bee colony algorithm, ABC), IABC-SVM (improving the artificial bee colony algorithm, IABC), GSA-SVM (gravity search algorithm, GSA) and GWO-SVM (gray wolf algorithm, GWO)) were used to identify resistant rice seeds. The difference in modeling accuracy and running time between the improved support vector machine model established in feature wavelengths and full wavelengths (200–3202 cm⁻¹) was compared. Finally, five spectral preproccessing algorithms, Savitzky–Golay 1-Der (SGD), Savitzky–Golay Smoothing (SGS), baseline (Base), multivariate scatter correction (MSC) and standard normal variable (SNV), were used to preprocess the original spectra. The random forest algorithm (RF) was used to extract the characteristic wavelengths. After different spectral preproccessing algorithms and the RF feature extraction, the improved support vector machine models were established. The results show that the recognition accuracy of the optimal IABC-SVM model based on the original data was 71%. Among the five spectral preproccessing algorithms, the SNV algorithm’s accuracy was the best. The accuracy of the test set in the IABC-SVM model was 100%, and the running time was 13 s. After SNV algorithms and the RF feature extraction, the classification accuracy of the IABC-SVM model did not decrease, and the running time was shortened to 9 s. This demonstrates the feasibility and effectiveness of IABC in SVM parameter optimization, with higher prediction accuracy and better stability. Therefore, the improved support vector machine model based on Ranman spectroscopy can be applied to the fast and non-destructive identification of resistant rice seeds.     

The Application of Complex Wavelet Transform to Spectral Signals Background Deduction

The accuracy of spectrograms may be affected by baseline excursion or drift when infrared spectrometers are used in the analyses of gases. Background deduction or baseline correction is one of the effective pretreatment methods that can improve measurement accuracy. This paper presents a novel methodology based on complex wavelet transform algorithm to perform background deduction. The complex wavelet transform methodology establishes a complex wavelet filter to decompose the spectral signals first, and set the decomposition coefficients in the high-frequency section to zero, and then reconstruct the background signals; finally, the background deduction can be realized by deducting the background signals. In this study, the complex wavelet established by Daubechies was selected to demonstrate background deduction aiming at simulative spectral signals with different backgrounds and the real spectral signal of SF6 decomposition gases. Compared with the results done by the real wavelet transform in the same conditions, the results indicate that complex wavelet transform methodology can perform background deduction more efficiently than real wavelet transform methodology, thus improving the effectiveness and precision of spectrogram measurements greatly, which is useful for SF6 gas decomposition compositions analysis     

The Application of Complex Wavelet Transform to Spectral Signals Background Deduction

The accuracy of spectrograms may be affected by baseline excursion or drift when infrared spectrometers are used in the analyses of gases. Background deduction or baseline correction is one of the effective pretreatment methods that can improve measurement accuracy. This paper presents a novel methodology based on complex wavelet transform algorithm to perform background deduction. The complex wavelet transform methodology establishes a complex wavelet filter to decompose the spectral signals first, and set the decomposition coefficients in the high-frequency section to zero, and then reconstruct the background signals; finally, the background deduction can be realized by deducting the background signals. In this study, the complex wavelet established by Daubechies was selected to demonstrate background deduction aiming at simulative spectral signals with different backgrounds and the real spectral signal of SF6 decomposition gases. Compared with the results done by the real wavelet transform in the same conditions, the results indicate that complex wavelet transform methodology can perform background deduction more efficiently than real wavelet transform methodology, thus improving the effectiveness and precision of spectrogram measurements greatly, which is useful for SF6 gas decomposition compositions analysis

     

最小角回归结合核极限学习机的近红外光谱对柑橘黄龙病的鉴别

传统的柑橘黄龙病检测方法存在准确度低、稳定性差等问题,该文提出了一种基于最小角回归结合核极限学习机(Least angle regression combined with kernel extreme learning machine,LAR-KELM_((RBF)))的近红外柑橘黄龙病鉴别方法。该方法将光谱数据通过小波变换进行预处理,然后用最小角回归(LAR)算法进行光谱波长的筛选,最后通过核极限学习机(KELM_((RBF)))实现样本的分类。实验采用柑橘叶片的近红外光谱数据,验证了LAR-KELM_((RBF))算法的性能,其分类准确度最高为99.91%,标准偏差为0.11。不同规模训练集的实验结果表明,LAR-KELM_((RBF))模型较极限学习机(ELM)、波形叠加极限学习机(SWELM)、反向传播神经网络(BP_((2层)))、KELM_((RBF))和支持向量机(SVM)模型分类准确度高、稳定性强,能够广泛应用于柑橘黄龙病的检测鉴别。     

Multi-class classification algorithm for optical diagnosis of oral cancer

We report development of a direct multi-class spectroscopic diagnostic algorithm for discrimination of high-grade cancerous tissue sites from low-grade as well as precancerous and normal squamous tissue sites of human oral cavity. The algorithm was developed making use of the recently formulated theory of total principal component regression (TPCR). The in vivo autofluorescence spectral data acquired from patients screened for neoplasm of oral cavity at the Government Cancer Hospital, Indore, was used to train and validate the algorithm. The diagnostic algorithm based on TPCR was found to provide satisfactory performance in classifying the tissue sites in four different classes - high-grade squamous cell carcinoma, low-grade squamous cell carcinoma, leukoplakia, and normal squamous tissue. The classification accuracy for these four classes was observed to be approximately 94%, 100%, 100% and 91% for the training data set (based on leave-one-out cross-validation), and was approximately 90%, 90%, 85% and 88%, respectively for the corresponding classes for the independent validation data set.     

小波变换方法的比较──红外光谱数据压缩

介绍了小波变换和多分辨分析的基本理论以及常用小波变换压缩数据的3种方法:(1)只保留模糊信号;(2)全部保留模糊信号及锐化信号中的较大值;(3)保留模糊信号及锐化信号中的较大值.将紧支集小波和正交三次B-样条小波压缩4-苯乙炔基-邻苯二甲酸酐的红外光谱数据进行了对比,计算表明正交三次B-样条小波变换方法效果较好,而在全部保留模糊信号及只保留锐化信号中数值较大的系数时,压缩比大而重建光谱数据与原始光谱数据间的均方差较小.     

基于非接触式拉曼光谱分析人血与犬血的PCA-LDA鉴别方法

将拉曼光谱分析法与数理统计方法有机结合,构建人血与犬血种属判别模型,实现了不同种属血液样本的高效无损鉴别.采用拉曼光谱的无损测试模式对血液样本进行测试,考察了抗凝管管材、聚焦位置及曝光时间等对血液样本拉曼光谱的影响,在激发波长为632.8 nm,光谱扫描范围为200~1800 cm-1,功率衰减率50%,曝光时间5 s及累加次数为2次的优化条件下,获得了无损检测条件下的血液样本拉曼光谱图.针对血液样本组分复杂、拉曼光谱信号基底背景高等问题,提出了基于小波变换去噪,进行分段多项式基线校正的预处理方法,有效解决了血液样本拉曼光谱谱图的高噪音和基线漂移问题.实验选择30例正常人血和33例比格犬血为样本训练集,5例正常人血和5例比格犬血为测试集,基于主成分分析法(PCA)联合线性判别法(LDA)模型,训练集分类正确率达到95.23%,盲测集分类正确率达90.00%.这种基于非接触式血液样本拉曼光谱和PCA-LDA判断模型的测试方法在进出口检验检疫等涉及血液无损鉴别的领域具有广泛的应用价值和前景.     

Computer-assisted prediction of pesticide substructure using mass spectra

Mass spectral classifiers of 16 substructures that are present in basic structures of pesticides have been investigated to assist pesticide residues analysis as well as screening of pesticide lead compounds. Mass spectral data are first transformed into 396 features, and then Genetic Algorithm-Partial Least Squares (GA-PLS) as a feature selection method and Support Vector Machine (SVM) as a validation method are implemented together to get an optimization feature set for each substructure. At last, a statistical method which is AdaBoost algorithm combined with Classification and Regression Tree (AdaBoost-CART) is trained to predict the 16 substructures presence/absence using the optimization mass spectral feature set. It is demonstrated that the optimum feature sets can be used to predict the 16 pesticide substructures presence/absence with mostly 85-100% in recognition success rate instead of the original 396 features.     

离散小波变换-遗传算法-交互检验法用于近红外光谱数据的高倍压缩与变量筛选

用遗传算法(GA)与交互检验(CV)相结合建立了一种用于对近红外光谱(NIR)数据及其离散小波变换(DWT)系数进行变量筛选的方法，并应用于烟草样品中总挥发碱和总氮的同时测定。结果表明：NIR数据经DWT压缩为原始大小的3．3％时基本没有光谱信息的丢失；有效的变量筛选可以极大地减少模型中的变量个数，降低模型的复杂程度，改善预测的准确度。     

Forward selection radial basis function networks applied to bacterial classification based on MALDI-TOF-MS

Forward selection improved radial basis function (RBF) network was applied to bacterial classification based on the data obtained by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF-MS). The classification of each bacterium cultured at different time was discussed and the effect of parameters of the RBF network was investigated. The new method involves forward selection to prevent overfitting and generalized cross-validation (GCV) was used as model selection criterion (MSC). The original data was compressed by using wavelet transformation to speed up the network training and reduce the number of variables of the original MS data. The data was normalized prior training and testing a network to define the area the neural network to be trained in, accelerate the training rate, and reduce the range the parameters to be selected in. The one-out-of-n method was used to split the data set of p samples into a training set of size p−1 and a test set of size 1. With the improved method, the classification correctness for the five bacteria discussed in the present paper are 87.5, 69.2, 80, 92.3, and 92.8%, respectively.     

小波变换结合多维偏最小二乘方法用于近红外光谱定量分析

将小波变换和多维偏最小二乘法相结合用于近红外光谱定量校正模型的建立。首先将原始光谱进行小波变换分解，得到系列小波细节系数，通过选取一组受外界因素少、信息强的小波系数组成三维光谱阵，然后再采用多维偏最小二乘法建立校正模型。实验结果表明，该方法所建近红外校正模捌的预测能力更强，并更具稳健性。     

Classification of Rat FTIR Colon Cancer Data Using Waveletsand BPNN

本文提出了一种新的基于水平衰减全反射-傅里叶变换红外光谱（HATR-FTIR）的小波特征提取与反向传播人工神经网络模式分类方法以提高FTIR对早期大鼠结肠癌的诊断准确率．对60只DMH诱导的SD大鼠,44只诱导鼠的第二代鼠,36只正常SD大鼠的结肠正常组织、异常增生、早癌及进展期癌组织所获得的的HATR-FTIR,利用连续小波多尺度分析法提取12个特征量,采用反向传播人工神经网络进行分类,识别准确率分别为100%、94%、97.5%及100%．实验结果表明此方法对早期结肠癌具有较高的诊断率．     

基于高光谱技术的培养基上细菌菌落分类方法研究

利用高光谱技术对培养基上细菌(大肠杆菌、李斯特菌和金黄色葡萄球菌)菌落进行快速识别和分类。采集琼脂培养基上细菌菌落的高光谱反射图像(390~1040 nm),在对波段差图像进行大津阈值分割的基础上自动提取细菌菌落光谱,并建立细菌分类检测的全波长和简化偏最小二乘判别( PLS-DA)模型。全波长模型对预测集样本的分类准确率和置信预测分类准确率分别为100%和95.9%。此外,利用竞争性自适应重加权算法( CARS)、遗传算法( GA)和最小角回归算法( LARS-Lasso)进行波长优选并建立对应简化模型。其中,CARS简化模型在精度、稳定性及分类准确率方面均优于GA和LARS-Lasso简化模型,其对预测集样本的分类准确率和置信预测分类准确率分别达到了100%和98.0%。研究表明,高光谱是一种细菌菌落高精度、快速、无损识别检测的有效方法。简化模型中优选的波长可以为开发低成本检测仪器提供理论依据。     

应用遗传算法和PLS的近红外光谱预测玉米中淀粉含量的研究

以普通玉米籽粒为试验材料,在应用遗传算法结合偏最小二乘回归法对近红外光谱数据进行特征波长选择的基础上,应用偏最小二乘回归法建立了特征波长测定玉米籽粒中淀粉含量的校正模型．试验结果表明,基于11个特征波长所建立的校正模型,其校正误差（RMSEC）、交叉检验误差（RMSECV）和预测误差（RMSEP）分别为0.30％、0.35％和0.27％,校正数据集和独立的检验数据集的预测值与实际测定值之间的相关系数分别达到0.9279和0.9390,与全光谱数据所建立的预测模型相比,在预测精度上均有所改善,表明应用遗传算法和PLS进行光谱特征选择,能获得更简单和更好的模型,为玉米籽粒中淀粉含量的近红外测定和红外光谱数据的处理提供了新的方法与途径．     

Classification and identification of mass spectra of toxic compounds with an inductive rule-building expert system and information theory

An expert system for classifying and identifying low-resolution mass spectra of toxic and related compounds was developed with an expert shell program. The shell system used was an inexpensive, rule-building software package with an implementation of the ID3 algorithm. Seventy-eight target compounds were used to establish classes previously found by SIMCA class modeling. The six classes included nonhalobenzenes; chlorobenzenes; bromoalkanes and bromoalkenes; mono- and di-chloroalkanes and the analogous alkenes; tri-, tetra- and penta-chloroalkanes and the analogous alkenes; and unknowns. Identification modules for the target compounds were forward-chained to the classification modules. An expert system based on binary-encoded mass spectra, with 17 masses selected on the basis of information content, gave 97 and 86% classification accuracy for training and test spectra, respectively. Identification accuracy was 77 and 80%, respectively. An expert system was also developed which was based on ternary encoding of the mass spectra of 108 training compounds using 25 masses. Ternary encoding has many of the advantages of binary encoding, without the disadvantages. This latter system was tested with the spectra of thirty compounds found in field samples or potential air pollutants. The classification accuracy for training and test spectra was 99 and 97%, respectively. The identification accuracy was 96 and 93%, respectively. With proper precautions, the rule-building expert system can be very effective in spectral classification and identification problems.     

基于小波系数的近红外光谱局部建模方法与应用研究

局部建模方法使用与预测样本相似的样本建立模型,可解决光谱响应与浓度之间的非线性问题,扩大模型的适用范围,提高预测准确度。采用小波变换进行数据压缩并利用小波系数之间的欧氏距离作为光谱相似性的判据,实现了近红外光谱定量分析的局部建模方法,避免了样本之间的依赖性。将所建立的方法用于烟草样品中氯含量的测定,100次重复计算得到的预测集均方根误差(RMSEP)平均值为0.0665,标准偏差(σ)为0.0045,优于全局建模和基于主成分的局部建模方法。     

基于近红外光谱技术与优化光谱预处理的陈皮产地鉴别研究

采集不同产地陈皮内侧和外侧的近红外光谱,采用不同光谱预处理方法进行预处理,筛选得到最佳光谱预处理方法,结合主成分分析法建立了陈皮产地的鉴别模型.实验发现,陈皮原始光谱中存在明显的基线漂移与背景干扰.使用单一光谱预处理可在一定程度上消除干扰的影响.经标准正态变量变换、多元散射校正、一阶导数、二阶导数与连续小波变换预处理后...     

A method for discovering transmembrane beta-barrel proteins in Gram-negative bacterial proteomes

Transmembrane beta-barrel (TMB) proteins play pivotal roles in many aspects of bacterial functions. This paper presents a k-nearest neighbor (K-NN) method for discriminating TMB and non-TMB proteins. We start with a method that makes predictions based on a distance computed from residue composition and gradually improve the prediction performance by including homologous sequences and searching for a set of residues and di-peptides for calculating the distance. The final method achieves an accuracy of 97.1%, with 0.876 MCC, 86.4% sensitivity and 98.8% specificity. A web server based on the proposed method is available at http://yanbioinformatics.cs.usu.edu:8080/TMBKNNsubmit.