Texture classification of proteins using support vector machines and bio-inspired metaheuristics

6th International Joint Conference, BIOSTEC 2013, Barcelona, Spain, February 11-14, 2013[Abstract] In this paper, a novel classification method of two-dimensional polyacrylamide gel electrophoresis images is presented. Such a method uses textural features obtained by means of a feature selection process for whose implementation we compare Genetic Algorithms and Particle Swarm Optimization. Then, the selected features, among which the most decisive and representative ones appear to be those related to the second order co-occurrence matrix, are used as inputs for a Support Vector Machine. The accuracy of the proposed method is around 94 %, a statistically better performance than the classification based on the entire feature set. This classification step can be very useful for discarding over-segmented areas after a protein segmentation or identification process

Solving SVM model selection problem using ACOR and IACOR

Ant Colony Optimization (ACO) has been used to solve Support Vector Machine (SVM) model selection problem.ACO originally deals with discrete optimization problem. In applying ACO for optimizing SVM parameters which are continuous variables, there is a need to discretize the continuously value into discrete values.This discretize process would result in loss of some information and hence affect the classification accuracy.In order to enhance SVM performance and solving the discretization problem, this study proposes two algorithms to optimize SVM parameters using Continuous ACO (ACOR) and Incremental Continuous Ant Colony Optimization (IACOR) without the need to discretize continuous value for SVM parameters.Eight datasets from UCI were used to evaluate the credibility of the proposed integrated algorithm in terms of classification accuracy and size of features subset.Promising results were obtained when compared to grid search technique, GA with feature chromosome-SVM, PSO-SVM, and GA-SVM. Results have also shown that IACOR-SVM is better than ACOR-SVM in terms of classification accuracy

Application of Global Optimization Methods for Feature Selection and Machine Learning

The feature selection process constitutes a commonly encountered problem of global combinatorial optimization. The process reduces the number of features by removing irrelevant and redundant data. This paper proposed a novel immune clonal genetic algorithm based on immune clonal algorithm designed to solve the feature selection problem. The proposed algorithm has more exploration and exploitation abilities due to the clonal selection theory, and each antibody in the search space specifies a subset of the possible features. Experimental results show that the proposed algorithm simplifies the feature selection process effectively and obtains higher classification accuracy than other feature selection algorithms

Development of Easily Accessible Electricity Consumption Model Using Open Data and GA-SVR

In many countries, DR (Demand Response) has been developed for which customers are motivated to save electricity by themselves during peak time to prevent grand-scale blackouts. One of the common methods in DR, is CPP (Critical Peak Pricing). Predicting energy consumption is recognized as one of the tool for dealing with CPP. There are a variety of studies in developing the model of energy consumption, which is based on energy simulation, data-driven model or metamodelling. However, it is difficult for general users to use these models due to requirement of various sensing data and expertise. And it also takes long time to simulate the models. These limitations can be an obstacle for achieving CPP’s purpose that encourages general users to manage their energy usage by themselves. As an alternative, this research suggests to use open data and GA (Genetic Algorithm)–SVR (Support Vector Regression). The model is applied to a hospital in Korea and 34,636 data sets (1 year) are collected while 31,756 (11 months) sets are used for training and 2880 sets (1 month) are used for validation. As a result, the performance of proposed model is 14.17% in CV (RMSE), which satisfies the Korea Energy Agency’s and ASHRAE (American Society of Heating, Refrigerating and Air-Conditioning Engineers) error allowance range of ±30%, and ±20% respectively

Optimization of treatment strategy

The purpose of this study was to predict the survival time of patients with malignant glioma after radiotherapy with high accuracy by considering additional clinical factors and optimize the prescription dose and treatment duration for individual patient by using a machine learning model. A total of 35 patients with malignant glioma were included in this study. The candidate features included 12 clinical features and 192 dose–volume histogram (DVH) features. The appropriate input features and parameters of the support vector machine (SVM) were selected using the genetic algorithm based on Akaike’s information criterion, i.e. clinical, DVH, and both clinical and DVH features. The prediction accuracy of the SVM models was evaluated through a leave-one-out cross-validation test with residual error, which was defined as the absolute difference between the actual and predicted survival times after radiotherapy. Moreover, the influences of various values of prescription dose and treatment duration on the predicted survival time were evaluated. The prediction accuracy was significantly improved with the combined use of clinical and DVH features compared with the separate use of both features (P < 0.01, Wilcoxon signed rank test). Mean ± standard deviation of the leave-one-out cross-validation using the combined clinical and DVH features, only clinical features and only DVH features were 104.7 ± 96.5, 144.2 ± 126.1 and 204.5 ± 186.0 days, respectively. The prediction accuracy could be improved with the combination of clinical and DVH features, and our results show the potential to optimize the treatment strategy for individual patients based on a machine learning model

Machine Learning Optimization of p-Type Transparent Conducting Films

p-Type transparent conducting materials (p-TCMs) are important components of optoelectronic devices including solar cells, photodetectors, displays, and flexible sensors. Cu-Zn-S thin films prepared by chemical bath deposition (CBD) can have both high transparency in the visible range (&gt;80%) as well as excellent hole conductivity (&gt;1000 S cm-1). However, the interplay between the deposition parameters in the CBD process (metal and sulfur precursor concentrations, temperature, pH, complexing agents, etc.) creates a multidimensional parameter space such that optimization for a specific application is challenging and time-consuming. Here we show that strategic design of experiment combined with machine learning (ML) allows for the efficient optimization of p-TCM performance. The approach is guided by a figure of merit (FOM) calculated from the film conductivity and optical transmission in the desired spectral range. A specific example is shown using two steps of optimization using a selected subset of four experimental CBD factors. The ML model is based on support vector regression employing a radial basis function as the kernel function. 10-fold cross-validation was performed to mitigate overfitting. After the first round of optimization, predicted areas in the parameter space with maximal FOMs were selected for a second round of optimization. Films with optimal FOMs were incorporated into heterojunction solar cells and transparent photodiodes. The optimization approach shown here will be generally applicable to any materials synthesis process with multiple parameters