Amira S. Ashour

A MapReduce approach to diminish imbalance parameters for big deoxyribonucleic acid dataset

BACKGROUND In the age of information superhighway, big data play a significant role in information processing, extractions, retrieving and management. In computational biology, the continuous challenge is to manage the biological data. Data mining techniques are sometimes imperfect for new space and time requirements. Thus, it is critical to process massive amounts of data to retrieve knowledge. The existing software and automated tools to handle big data sets are not sufficient. As a result, an expandable mining technique that enfolds the large storage and processing capability of distributed or parallel processing platforms is essential. METHOD In this analysis, a contemporary distributed clustering methodology for imbalance data reduction using k-nearest neighbor (K-NN) classification approach has been introduced. The pivotal objective of this work is to illustrate real training data sets with reduced amount of elements or instances. These reduced amounts of data sets will ensure faster data classification and standard storage management with less sensitivity. However, general data reduction methods cannot manage very big data sets. To minimize these difficulties, a MapReduce-oriented framework is designed using various clusters of automated contents, comprising multiple algorithmic approaches. RESULTS To test the proposed approach, a real DNA (deoxyribonucleic acid) dataset that consists of 90 million pairs has been used. The proposed model reduces the imbalance data sets from large-scale data sets without loss of its accuracy. CONCLUSIONS The obtained results depict that MapReduce based K-NN classifier provided accurate results for big data of DNA.

Parameter Optimization for Local Polynomial Approximation based Intersection Confidence Interval Filter Using Genetic Algorithm: An Application for Brain MRI Image De-Noising

Magnetic resonance imaging (MRI) is extensively exploited for more accurate pathological changes as well as diagnosis. Conversely, MRI suffers from various shortcomings such as ambient noise from the environment, acquisition noise from the equipment, the presence of background tissue, breathing motion, body fat, etc. Consequently, noise reduction is critical as diverse types of the generated noise limit the efficiency of the medical image diagnosis. Local polynomial approximation based intersection confidence interval (LPA-ICI) filter is one of the effective de-noising filters. This filter requires an adjustment of the ICI parameters for efficient window size selection. From the wide range of ICI parametric values, finding out the best set of tunes values is itself an optimization problem. The present study proposed a novel technique for parameter optimization of LPA-ICI filter using genetic algorithm (GA) for brain MR images de-noising. The experimental results proved that the proposed method outperforms the LPA-ICI method for de-noising in terms of various performance metrics for different noise variance levels. Obtained results reports that the ICI parameter values depend on the noise variance and the concerned under test image.

Automated stratification of liver disease in ultrasound

PURPOSE Fatty liver disease (FLD) is one of the most common diseases in liver. Early detection can improve the prognosis considerably. Using ultrasound for FLD detection is highly desirable due to its non-radiation nature, low cost and easy use. However, the results can be slow and ambiguous due to manual detection. The lack of computer trained systems leads to low image quality and inefficient disease classification. Thus, the current study proposes novel, accurate and reliable detection system for the FLD using computer-based training system. MATERIALS AND METHODS One hundred twenty-four ultrasound sample images were selected retrospectively from a database of 62 patients consisting of normal and cancerous. The proposed training system was generated offline parameters using training liver image database. The classifier applied transformation parameters to an online system in order to facilitate real-time detection during the ultrasound scan. The system utilized six sets of features (a total of 128 features), namely Haralick, basic geometric, Fourier transform, discrete cosine transform, Gupta transform and Gabor transform. These features were extracted for both offline training and online testing. Levenberg-Marquardt back propagation network (BPN) classifier was used to classify the liver disease into normal and abnormal categories. RESULTS Random partitioning approach was adapted to evaluate the classifier performance and compute its accuracy. Utilizing all the six sets of 128 features, the computer aided diagnosis (CAD) system achieved classification accuracy of 97.58%. Furthermore, the four performance metrics consisting of sensitivity, specificity, positive predictive value (PPV), and negative predictive value (NPV) realized 98.08%, 97.22%, 96.23%, and 98.59%, respectively. CONCLUSION The proposed system was successfully able to detect and classify the FLD. Furthermore, the proposed system was benchmarked against previous methods. The comparison established an advanced set of features in the Levenberg-Marquardt back propagation network reports a significant improvement compared to the existing techniques.

Internet of Things and Big Data Technologies for Next Generation Healthcare

This comprehensive book focuses on better big-data security for healthcare organizations. Following an extensive introduction to the Internet of Things (IoT) in healthcare including challenging topics and scenarios, it offers an in-depth analysis of medical body area networks with the 5th generation of IoT communication technology along with its nanotechnology. It also describes a novel strategic framework and computationally intelligent model to measure possible security vulnerabilities in the context of e-health. Moreover, the book addresses healthcare systems that handle large volumes of data driven by patients records and health/personal information, including big-data-based knowledge management systems to support clinical decisions. Several of the issues faced in storing/processing big data are presented along with the available tools, technologies and algorithms to deal with those problems as well as a case study in healthcare analytics. Addressing trust, privacy, and security issues as well as the IoT and big-data challenges, the book highlights the advances in the field to guide engineers developing different IoT devices and evaluating the performance of different IoT techniques. Additionally, it explores the impact of such technologies on public, private, community, and hybrid scenarios in healthcare. This book offers professionals, scientists and engineers the latest technologies, techniques, and strategies for IoT and big data.

MEDLINE Text Mining: An Enhancement Genetic Algorithm Based Approach for Document Clustering

MEDLINE is the largest biomedical literature database. It is updated daily with 200–4,000 citations. This permanent growth induces the need of a good MEDLINE abstract clustering to accelerate the procedure of research and information retrieval. Several works have been developed in this context, but clustering MEDLINE abstracts are still an area where researchers are trying to propose new approaches to better clustering. Over the last few years, evolutionary algorithms have been widely applied to clustering problems because of their ability to avoid local optimal solutions and converge to a global one. In this article, a new approach is proposed for clustering MEDLINE abstracts based on an extension of an evolutionary algorithm which is the genetic algorithm combined with a Vector Space Model and an agglomerative algorithm.

Indian Sign Language Recognition Using Optimized Neural Networks

Recognition of sign languages has gained reasonable interest by the researchers in the last decade. An accurate sign language recognition system can facilitate more accurate communication of deaf and dumb people. The wide variety of Indian Sign Language (ISL) led to more challenging learning process. In the current work, three novel methods was reported to solve the problem of recognition of ISL gestures effectively by combining Neural Network (NN) with Genetic Algorithm (GA), Evolutionary algorithm (EA) and Particle Swarm Optimization (PSO) separately to attain novel NN-GA, NN-EA and NN-PSO methods; respectively. The input weight vector to the NN has been optimized gradually to achieve minimum error. The proposed methods performance was compared to NN and the Multilayer Perceptron Feed-Forward Network (MLP-FFN) classifiers. Several performance metrics such as the accuracy, precision, recall, F-measure and kappa statistic were calculated. The experimental results established that the proposed algorithm achieved considerable improvement over the performance of existing works in order to recognize ISL gestures. The NN-PSO outperformed the other approaches with 99.96 accuracy, 99.98 precision, 98.29 recall, 99.63 F-Measure and 0.9956 Kappa Statistic.

Classification and Clustering in Biomedical Signal Processing

Advanced techniques in image processing have led to many innovations supporting the medical field, especially in the area of disease diagnosis. Biomedical imaging is an essential part of early disease detection and often considered a first step in the proper management of medical pathological conditions. Classification and Clustering in Biomedical Signal Processing focuses on existing and proposed methods for medical imaging, signal processing, and analysis for the purposes of diagnosing and monitoring patient conditions. Featuring the most recent empirical research findings in the areas of signal processing for biomedical applications with an emphasis on classification and clustering techniques, this essential publication is designed for use by medical professionals, IT developers, and advanced-level graduate students.

Dengue Fever Classification Using Gene Expression Data: A PSO Based Artificial Neural Network Approach

A mosquito borne pathogen called Dengue virus (DENV) has been emerged as one of the most fatal threats in the recent time. Infections can be in two main forms, namely the DF (Dengue Fever), and DHF (Dengue Hemorrhagic Fever). An efficient detection method for both fever types turns out to be a significant task. Thus, in the present work, a novel application of Particle Swarm Optimization (PSO) trained Artificial Neural Network (ANN) has been employed to separate the patients having Dengue fevers from those who are recovering from it or do not have DF. The ANN’s input weight vector are optimized using PSO to achieve the expected accuracy and to avoid premature convergence toward the local optima. Therefore, a gene expression data (GDS5093 dataset) available publicly is used. The dataset contains gene expression data for DF, DHF, convalescent and healthy control patients of total 56 subjects. Greedy forward selection method has been applied to select most promising genes to identify the DF, DHF and normal (either convalescent or healthy controlled) patients. The proposed system performance was compared to the multilayer perceptron feed-forward neural network (MLP-FFN) classifier. Results proved the dominance of the proposed method with achieved accuracy of 90.91 %.

Evolutionary framework for coding area selection from cancer data

AbstractCancer data analysis is significant to detect the codes that are responsible for cancer diseases. It is significant to find out the coding regions from diseases infected biological data. The infected data will be helpful to design proper drugs and will be supportable in laboratory assessments. Codes bear specific meaning on various features as well as symptoms of diseases. Coding of biological data is a key area to get exact information on animals to discover the desired medicine. In the current work, four different machine learning approaches such as support vector machine (SVM), principal component analysis (PCA) technique, neural mapping skyline filtering (NMSF) and Fisher’s discriminant analysis (FDA) were applied for data reduction and coding area selection. The experimental analysis established that the SVM outperforms PCA and FDA. However, due to the mapping facility, NMSF outperforms SVM. Thus, the NMSF achieved the preeminent results among the four techniques. Matthews’s correlation coefficient was used to evaluate the accuracy, specificity, sensitivity, F-measures and error rate of the four methods that are used to determine the coding area. Detailed experimental analysis included comparison study among the four classifiers for the deoxyribonucleic acid dataset.

Rule-based back propagation neural networks for various precision rough set presented KANSEI knowledge prediction: a case study on shoe product form features extraction

Abstract Nonlinear operators for KANSEI evaluation dataset were significantly developed such as uncertainty reason techniques including rough set, fuzzy set and neural networks. In order to extract more accurate KANSEI knowledge, rule-based presentation was concluded a promising way in KANSEI engineering research. In the present work, variable precision rough set was applied in rule-based system to reduce the complexity of the knowledge database from normal item dataset to high frequent rule set. In addition, evidence theory’s reliability indices, namely the support and confidence for rule-based knowledge presentation, were proposed by using back propagation neural network with Bayesian regularization algorithm. The proposed method was applied in shoes KANSEI evaluation system; for a certain KANSEI adjective, the key form features of products were predicted. Some similar algorithms such as Levenberg–Marquardt and scaled conjugate gradient were also discussed and compared to establish the effectiveness of the proposed approach. The experimental results established the effectiveness and feasibility of the proposed algorithms customized for shoe industry, where the proposed back propagation neural network/Bayesian regularization approach achieved superior performance compared to the other algorithms in terms of the performance, gradient, Mu, Effective number of parameter, and the sum square parameter in KANSEI support and confidence time series prediction.