Comparative Study of NMR Spectral Profiling for the Characterization and Authentication of Cannabis

2017 ◽  
Vol 100 (5) ◽  
pp. 1356-1364 ◽  
Author(s):  
Xinyi Wang ◽  
Peter de B Harrington ◽  
Steven F Baugh
Keyword(s):  
Discriminant Analysis ◽  
Nmr Spectroscopy ◽  
Plant Extracts ◽  
Screening Method ◽  
Fuzzy Rule ◽  
Classification Performance ◽  
Support Vector ◽  
Classification Methods ◽  
Linear Discriminant ◽  
Projected Difference Resolution

Abstract For the authentication of botanical materials, itis difficult to obtain representative reference materials because botanicals vary significantly with respect to cultivation conditions. Chemical profiling of plant extracts or spectral fingerprinting can differentiate botanicals and group them by their chemical profiles. NMR spectroscopy yields a powerful and useful method for profiling plant extracts. Both 500 MHz 1H and 1H-1H correlation NMR spectroscopy coupled with pattern recognition were used to discriminate among Cannabis samples. A rapid method of analysis was achieved by extracting directly into the deuterated solvent. Spectral ranges including or excluding the downfield region were compared to evaluate the effect on classification accuracy by projected difference resolution. Six classification methods—fuzzy rule-building expert system, linear discriminant analysis (LDA), super partial least-squares discriminant analysis, support vector machine (SVM), and SVMclassification trees (SVMTrees)—all gave better classification performance for proton NMR spectrathan for proton-proton correlation NMR spectra for seven Cannabis samples. Among the classification methods for a set of 25 Cannabis samples, the 0.5–7.2 plus 7.4–13.0 ppm ranges gave higher prediction rates of greater than 96% when compared to the reduced range of 0.5–7.2 ppm that excluded the downfield range. The LDA method had the best prediction accuracy of 99.8 ± 0.4%. SVMTree methods provide a robust tool, and classification trees are amenable to interpretation. Hence, NMR spectroscopy combined withchemometrics could be used as a fast screening method for the authentication of Cannabis samples.

Comparisons of classification methods for viral genomes and protein families using alignment-free vectorization

2018 ◽  
Vol 17 (4) ◽  
Author(s):  
Hsin-Hsiung Huang ◽  
Shuai Hao ◽  
Saul Alarcon ◽  
Jie Yang
Keyword(s):  
Discriminant Analysis ◽  
Linear Discriminant Analysis ◽  
Nearest Neighbor ◽  
Genomic Analysis ◽  
Support Vector ◽  
Comparative Genomic ◽  
Classification Methods ◽  
Statistical Classification ◽  
Linear Discriminant ◽  
Viral Genomes

Abstract In this paper, we propose a statistical classification method based on discriminant analysis using the first and second moments of positions of each nucleotide of the genome sequences as features, and compare its performances with other classification methods as well as natural vector for comparative genomic analysis. We examine the normality of the proposed features. The statistical classification models used including linear discriminant analysis, quadratic discriminant analysis, diagonal linear discriminant analysis, k-nearest-neighbor classifier, logistic regression, support vector machines, and classification trees. All these classifiers are tested on a viral genome dataset and a protein dataset for predicting viral Baltimore labels, viral family labels, and protein family labels.

Diagnosis of Liver Disease by Using Least Squares Support Vector Machine Approach

2018 ◽  
pp. 1824-1837
Author(s):  
Aman Singh ◽  
Babita Pandey
Keyword(s):  
Support Vector Machine ◽  
Liver Disease ◽  
Discriminant Analysis ◽  
Least Squares ◽  
Support Vector ◽  
Health Examination ◽  
Classification Methods ◽  
Feed Forward Neural Network ◽  
Linear Discriminant ◽  
Linear Svm

A healthy liver leads to healthy life. In India, as well as in other parts of the world, liver disease is one of the principle areas of concern in medicine. For this study, diagnosis of liver disease is performed by deploying classification methods include linear discriminant analysis (LDA), quadratic discriminant analysis (QDA), feed-forward neural network (FFNN) and support vector machine (SVM) based approaches. Experimental results concluded that SVM based approaches outperformed all other classification methods in terms of diagnostic accuracy rates. Furthermore, least squares support vector machine (LSSVM) with gaussian radial basis kernel function based machine learning approach had emerged as the as the best predictive model by reducing inefficiencies caused by false diagnosis. LSSVM also performed better than linear SVM, polynomial SVM, quadratic SVM and multilayer perceptron SVM despite the uneven variance in attribute values in the health examination data.

scholarly journals Comparison of Parametric and Non-parametric EEG Feature Extraction Methods in Detection of Pediatric Migraine without Aura

2018 ◽  
Author(s):  
S Kazemi ◽  
P Katibeh
Keyword(s):  
Support Vector Machine ◽  
Feature Extraction ◽  
Discriminant Analysis ◽  
Linear Discriminant Analysis ◽  
Extraction Methods ◽  
Dominant Frequency ◽  
Support Vector ◽  
Classification Methods ◽  
Linear Discriminant ◽  
Non Parametric

Background: Migraine headache without aura is the most common type of migraine especially among pediatric patients. It has always been a great challenge of migraine diagnosis using quantitative electroencephalography measurements through feature classification. It has been proven that different feature extraction and classification methods vary in terms of performance regarding detection and diagnostic accuracy. Previous work on the subject was controversial, hence a comparison of these methods seems necessary.Objectives: The aim of this research is to compare two parametric and non-parametric feature extraction methods and also two classification methods in order to obtain optimal combinations of diagnostic accuracy.Materials and Methods: Having recorded background EEG from 24 pediatric migraineurs and 19 control subjects, data was processed by Welch’s and Yule-Walker’s methods. Features were selected using genetic algorithm, and then given to a support vector machine and the linear discriminant analysis for the classification. Accuracy was calculated for all combinations having the dominant frequency and the correlated absolute power of each EEG wave band (theta, alpha, and beta) and for all wave bands combined.Results: The highest migraine detection accuracy of 93% was obtained utilizing Welch’s method for EEG feature extraction alongside support vector machine for a classifier. Besides, Yule-Walker autoregressive method showed better performance than Welch’s, when only power bands (and not the dominant frequency) were used as classification input.Conclusion: The superiority of Welch’s method over Yule-Walker’s and the support vector machine over linear discriminant analysis can be great help for further researches on computer aided EEG-based diagnosis of migraine

Diagnosis of Liver Disease by Using Least Squares Support Vector Machine Approach

2016 ◽  
Vol 11 (2) ◽  
pp. 62-75 ◽  
Author(s):  
Aman Singh ◽  
Babita Pandey
Keyword(s):  
Support Vector Machine ◽  
Liver Disease ◽  
Discriminant Analysis ◽  
Least Squares ◽  
Support Vector ◽  
Health Examination ◽  
Classification Methods ◽  
Feed Forward Neural Network ◽  
Linear Discriminant ◽  
Linear Svm

A healthy liver leads to healthy life. In India, as well as in other parts of the world, liver disease is one of the principle areas of concern in medicine. For this study, diagnosis of liver disease is performed by deploying classification methods include linear discriminant analysis (LDA), quadratic discriminant analysis (QDA), feed-forward neural network (FFNN) and support vector machine (SVM) based approaches. Experimental results concluded that SVM based approaches outperformed all other classification methods in terms of diagnostic accuracy rates. Furthermore, least squares support vector machine (LSSVM) with gaussian radial basis kernel function based machine learning approach had emerged as the as the best predictive model by reducing inefficiencies caused by false diagnosis. LSSVM also performed better than linear SVM, polynomial SVM, quadratic SVM and multilayer perceptron SVM despite the uneven variance in attribute values in the health examination data.

scholarly journals Identifying Medicinal Plant Leaves using Textures and Optimal Colour Spaces Channel

2017 ◽  
Vol 10 (1) ◽  
pp. 19 ◽  
Author(s):  
C H Arun ◽  
D Christopher Durairaj
Keyword(s):  
Discriminant Analysis ◽  
Medicinal Plant ◽  
Classification Performance ◽  
Stochastic Gradient Descent ◽  
Support Vector ◽  
Identification System ◽  
Dependency Matrix ◽  
Linear Discriminant ◽  
Identification Rate ◽  
Grey Tone

This paper presents an automated medicinal plant leaf identification system. The Colour Texture analysis of the leaves is done using the statistical, the Grey Tone Spatial Dependency Matrix(GTSDM) and the Local Binary Pattern(LBP) based features with 20 different  colour spaces(RGB, XYZ, CMY, YIQ, YUV, $YC_{b}C_{r}$, YES, $U^{*}V^{*}W^{*}$, $L^{*}a^{*}b^{*}$, $L^{*}u^{*}v^{*}$, lms, $l\alpha\beta$, $I_{1} I_{2} I_{3}$, HSV, HSI, IHLS, IHS, TSL, LSLM and KLT).  Classification of the medicinal plant is carried out with 70\% of the dataset in training set and 30\% in the test set. The classification performance is analysed with Stochastic Gradient Descent(SGD), kNearest Neighbour(kNN), Support Vector Machines based on Radial basis function kernel(SVM-RBF), Linear Discriminant Analysis(LDA) and Quadratic Discriminant Analysis(QDA) classifiers. Results of classification on a dataset of 250 leaf images belonging to five different species of plants show the identification rate of 98.7 \%. The results certainly show better identification due to the use of YUV, $L^{*}a^{*}b^{*}$ and HSV colour spaces.

Colorectal Cancer Classification and Survival Analysis Based on an Integrated RNA and DNA molecular signature

2020 ◽  
Vol 15 ◽  
Author(s):  
Mohanad Mohammed ◽  
Henry Mwambi ◽  
Bernard Omolo
Keyword(s):  
Colorectal Cancer ◽  
Survival Analysis ◽  
Discriminant Analysis ◽  
Linear Discriminant Analysis ◽  
Negative Binomial ◽  
Sub Saharan Africa ◽  
Support Vector ◽  
Mutation Status ◽  
Linear Discriminant ◽  
Rnaseq Data

Background: Colorectal cancer (CRC) is the third most common cancer among women and men in the USA, and recent studies have shown an increasing incidence in less developed regions, including Sub-Saharan Africa (SSA). We developed a hybrid (DNA mutation and RNA expression) signature and assessed its predictive properties for the mutation status and survival of CRC patients. Methods: Publicly-available microarray and RNASeq data from 54 matched formalin-fixed paraffin-embedded (FFPE) samples from the Affymetrix GeneChip and RNASeq platforms, were used to obtain differentially expressed genes between mutant and wild-type samples. We applied the support-vector machines, artificial neural networks, random forests, k-nearest neighbor, naïve Bayes, negative binomial linear discriminant analysis, and the Poisson linear discriminant analysis algorithms for classification. Cox proportional hazards model was used for survival analysis. Results: Compared to the genelist from each of the individual platforms, the hybrid genelist had the highest accuracy, sensitivity, specificity, and AUC for mutation status, across all the classifiers and is prognostic for survival in patients with CRC. NBLDA method was the best performer on the RNASeq data while the SVM method was the most suitable classifier for CRC across the two data types. Nine genes were found to be predictive of survival. Conclusion: This signature could be useful in clinical practice, especially for colorectal cancer diagnosis and therapy. Future studies should determine the effectiveness of integration in cancer survival analysis and the application on unbalanced data, where the classes are of different sizes, as well as on data with multiple classes.

scholarly journals Analysis of Different Classification Techniques for Two-Class Functional Near-Infrared Spectroscopy-Based Brain-Computer Interface

2016 ◽  
Vol 2016 ◽  
pp. 1-11 ◽  
Author(s):  
Noman Naseer ◽  
Nauman Khalid Qureshi ◽  
Farzan Majeed Noori ◽  
Keum-Shik Hong
Keyword(s):  
Infrared Spectroscopy ◽  
Discriminant Analysis ◽  
Near Infrared Spectroscopy ◽  
Near Infrared ◽  
Continuous Wave ◽  
Mental Arithmetic ◽  
Statistical Significance ◽  
Support Vector ◽  
Functional Near Infrared Spectroscopy ◽  
Linear Discriminant

We analyse and compare the classification accuracies of six different classifiers for a two-class mental task (mental arithmetic and rest) using functional near-infrared spectroscopy (fNIRS) signals. The signals of the mental arithmetic and rest tasks from the prefrontal cortex region of the brain for seven healthy subjects were acquired using a multichannel continuous-wave imaging system. After removal of the physiological noises, six features were extracted from the oxygenated hemoglobin (HbO) signals. Two- and three-dimensional combinations of those features were used for classification of mental tasks. In the classification, six different modalities, linear discriminant analysis (LDA), quadratic discriminant analysis (QDA),k-nearest neighbour (kNN), the Naïve Bayes approach, support vector machine (SVM), and artificial neural networks (ANN), were utilized. With these classifiers, the average classification accuracies among the seven subjects for the 2- and 3-dimensional combinations of features were 71.6, 90.0, 69.7, 89.8, 89.5, and 91.4% and 79.6, 95.2, 64.5, 94.8, 95.2, and 96.3%, respectively. ANN showed the maximum classification accuracies: 91.4 and 96.3%. In order to validate the results, a statistical significance test was performed, which confirmed that thepvalues were statistically significant relative to all of the other classifiers (p< 0.005) using HbO signals.

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