Comparison between Support Vector Machine and Random Forest for Hepatocellular Carcinoma (HCC) Classification

2020 ◽  
Author(s):  
Velery Virgina Putri Wibowo ◽  
Zuherman Rustam ◽  
Sri Hartini ◽  
Qisthina Syifa Setiawan ◽  
Jane Eva Aurelia
Keyword(s):  
Hepatocellular Carcinoma ◽  
Support Vector Machine ◽  
Random Forest ◽  
Support Vector

scholarly journals Comparison of Computational Algorithms for the Classification of Liver Cancer using SELDI Mass Spectrometry: A Case Study

2007 ◽  
Vol 3 ◽  
pp. 117693510700300 ◽  
Author(s):  
Changyu Shen ◽  
Timothy E Breen ◽  
Lacey E Dobrolecki ◽  
C. Max Schmidt ◽  
George W. Sledge ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Hepatocellular Carcinoma ◽  
Support Vector Machine ◽  
Random Forest ◽  
Radial Function ◽  
Support Vector ◽  
Laser Desorption Ionization ◽  
Prediction Analysis

Introduction As an alternative to DNA microarrays, mass spectrometry based analysis of proteomic patterns has shown great potential in cancer diagnosis. The ultimate application of this technique in clinical settings relies on the advancement of the technology itself and the maturity of the computational tools used to analyze the data. A number of computational algorithms constructed on different principles are available for the classification of disease status based on proteomic patterns. Nevertheless, few studies have addressed the difference in the performance of these approaches. In this report, we describe a comparative case study on the classification accuracy of hepatocellular carcinoma based on the serum proteomic pattern generated from a Surface Enhanced Laser Desorption/Ionization (SELDI) mass spectrometer. Methods Nine supervised classification algorithms are implemented in R software and compared for the classification accuracy. Results We found that the support vector machine with radial function is preferable as a tool for classification of hepatocellular carcinoma using features in SELDI mass spectra. Among the rest of the methods, random forest and prediction analysis of microarrays have better performance. A permutation-based technique reveals that the support vector machine with a radial function seems intrinsically superior in learning from the training data since it has a lower prediction error than others when there is essentially no differential signal. On the other hand, the performance of the random forest and prediction analysis of microarrays rely on their capability of capturing the signals with substantial differentiation between groups. Conclusions Our finding is similar to a previous study, where classification methods based on the Matrix Assisted Laser Desorption/Ionization (MALDI) mass spectrometry are compared for the prediction accuracy of ovarian cancer. The support vector machine, random forest and prediction analysis of microarrays provide better prediction accuracy for hepatocellular carcinoma using SELDI proteomic data than six other approaches.

scholarly journals Algorithmic and data modeling: Will algorithmic modeling improve predictions of traits evaluated on ordinal scales?

2020 ◽  
Author(s):  
Zhanyou Xu ◽  
Andreomar Kurek ◽  
Steven B. Cannon ◽  
Williams D. Beavis
Keyword(s):  
Support Vector Machine ◽  
Random Forest ◽  
Ridge Regression ◽  
Genomic Prediction ◽  
Ordinal Data ◽  
Prediction Models ◽  
Characteristic Curve ◽  
Gradient Boosting ◽  
Support Vector ◽  
Data Types

AbstractSelection of markers linked to alleles at quantitative trait loci (QTL) for tolerance to Iron Deficiency Chlorosis (IDC) has not been successful. Genomic selection has been advocated for continuous numeric traits such as yield and plant height. For ordinal data types such as IDC, genomic prediction models have not been systematically compared. The objectives of research reported in this manuscript were to evaluate the most commonly used genomic prediction method, ridge regression and it’s equivalent logistic ridge regression method, with algorithmic modeling methods including random forest, gradient boosting, support vector machine, K-nearest neighbors, Naïve Bayes, and artificial neural network using the usual comparator metric of prediction accuracy. In addition we compared the methods using metrics of greater importance for decisions about selecting and culling lines for use in variety development and genetic improvement projects. These metrics include specificity, sensitivity, precision, decision accuracy, and area under the receiver operating characteristic curve. We found that Support Vector Machine provided the best specificity for culling IDC susceptible lines, while Random Forest GP models provided the best combined set of decision metrics for retaining IDC tolerant and culling IDC susceptible lines.

scholarly journals Mapeamento da Vegetação Nativa do Cerrado na Região de Três Lagoas-MS com o Google Earth Engine

2019 ◽  
Vol 71 (3) ◽  
pp. 702-725
Author(s):  
Nayara Vasconcelos Estrabis ◽  
José Marcato Junior ◽  
Hemerson Pistori
Keyword(s):  
Support Vector Machine ◽  
Random Forest ◽  
Google Earth ◽  
Support Vector ◽  
Landsat 8 ◽  
Landsat 8 Oli ◽  
Google Earth Engine

O Cerrado é um dos biomas existentes no Brasil e o segundo mais extenso da América do Sul. Possui grande importância devido a sua biodiversidade, ecossistema e principalmente por servir como um reservatório, ou “esponja”, que distribui água para os demais biomas, além de ser berço de nascentes de algumas das maiores bacias da América do Sul. No entanto, devido às atividades antrópicas praticadas (com destaque para a pecuária e silvicultura) e a redução da vegetação nativa, este bioma está ameaçado. Considerado como hotspot em biodiversidade, o Cerrado pode não existir em 2050. Com a necessidade de sua preservação, o objetivo desse trabalho consistiu em investigar o uso de algoritmos de aprendizado de máquina para realizar o mapeamento da vegetação nativa existente na região do município de Três Lagoas, utilizando a plataforma em nuvem Google Earth Engine. O processo foi realizado com uma imagem Landsat-8 OLI, datada de 10 de outubro de 2018, e com os algoritmos Random Forest (RF) e Support Vector Machine (SVM). Na validação da classificação, o RF e o SVM apresentaram índices kappa iguais a 0,94 e 0,97, respectivamente. O RF, quando comparado ao SVM, apresentou classificação mais ruidosa. Por fim, verificou-se a existência de vegetação nativa de aproximadamente 2556 km² ao adotar o RF e 2873 km² ao adotar SVM.

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