Hybrid Genetic Algorithm for Medical Image Feature Extraction and Selection

AbstractFor a hybrid medical image retrieval system, a genetic algorithm (GA) approach is presented for the selection of dimensionality reduced set of features. This system was developed in three phases. In first phase, three distinct algorithm are used to extract the vital features from the images. The algorithm devised for the extraction of the features are Texton based contour gradient extraction algorithm, Intrinsic pattern extraction algorithm and modified shift invariant feature transformation algorithm. In the second phase to identify the potential feature vector GA based feature selection is done, using a hybrid approach of “Branch and Bound Algorithm” and “Artificial Bee Colony Algorithm” using the breast cancer, Brain tumour and thyroid images. The Chi Square distance measurement is used to assess the similarity between query images and database images. A fitness function with respect Minimum description length principle were used as initial requirement for genetic algorithm. In the third phase to improve the performance of the hybrid content based medical image retrieval system diverse density based relevance feedback method is used. The term hybrid is used as this system can be used to retrieve any kind of medical image such as breast cancer, brain tumour, lung cancer, thyroid cancer and so on. This machine learning based feature selection method is used to reduce the existing system dimensionality problem. The experimental result shows that the GA driven image retrieval system selects optimal subset of feature to identify the right set of images

Identification of disease-causing genes using microarray data mining and gene ontology

Background: One of the best and most accurate methods for identifying disease-causing genes is monitoring gene expression values in different samples using microarray technology. One of the shortcomings of microarray data is that they provide a small quantity of samples with respect to the number of genes. This problem reduces the classification accuracy of the methods, so gene selection is essential to improve the predictive accuracy and to identify potential marker genes for a disease. Among numerous existing methods for gene selection, support vector machine-based recursive feature elimination (SVMRFE) has become one of the leading methods, but its performance can be reduced because of the small sample size, noisy data and the fact that the method does not remove redundant genes. Methods: We propose a novel framework for gene selection which uses the advantageous features of conventional methods and addresses their weaknesses. In fact, we have combined the Fisher method and SVMRFE to utilize the advantages of a filtering method as well as an embedded method. Furthermore, we have added a redundancy reduction stage to address the weakness of the Fisher method and SVMRFE. In addition to gene expression values, the proposed method uses Gene Ontology which is a reliable source of information on genes. The use of Gene Ontology can compensate, in part, for the limitations of microarrays, such as having a small number of samples and erroneous measurement results. Results: The proposed method has been applied to colon, Diffuse Large B-Cell Lymphoma (DLBCL) and prostate cancer datasets. The empirical results show that our method has improved classification performance in terms of accuracy, sensitivity and specificity. In addition, the study of the molecular function of selected genes strengthened the hypothesis that these genes are involved in the process of cancer growth. Conclusions: The proposed method addresses the weakness of conventional methods by adding a redundancy reduction stage and utilizing Gene Ontology information. It predicts marker genes for colon, DLBCL and prostate cancer with a high accuracy. The predictions made in this study can serve as a list of candidates for subsequent wet-lab verification and might help in the search for a cure for cancers

Effective retrieval and new indexing method for case based reasoning: Application in chemical process design

In this paper we try to improve the retrieval step for case based reasoning for preliminary design. This improvement deals with three major parts of our CBR system. First, in the preliminary design step, some uncertainties like imprecise or unknown values remain in the description of the problem, because they need a deeper analysis to be withdrawn. To deal with this issue, the faced problem description is soften with the fuzzy sets theory. Features are described with a central value, a percentage of imprecision and a relation with respect to the central value. These additional data allow us to build a domain of possible values for each attributes. With this representation, the calculation of the similarity function is impacted, thus the characteristic function is used to calculate the local similarity between two features. Second, we focus our attention on the main goal of the retrieve step in CBR to find relevant cases for adaptation. In this second part, we discuss the assumption of similarity to find the more appropriated case. We put in highlight that in some situations this classical similarity must be improved with further knowledge to facilitate case adaptation. To avoid failure during the adaptation step, we implement a method that couples similarity measurement with adaptability one, in order to approximate the cases utility more accurately. The latter gives deeper information for the reusing of cases. In a last part, we present a generic indexing technique for the base, and a new algorithm for the research of relevant cases in the memory. The sphere indexing algorithm is a domain independent index that has performances equivalent to the decision tree ones. But its main strength is that it puts the current problem in the center of the research area avoiding boundaries issues. All these points are discussed and exemplified through the preliminary design of a chemical engineering unit operation

Evolutionary intelligent agents for e-commerce: Generic preference detection with feature analysis

Product recommendation and preference tracking systems have been adopted extensively in e-commerce businesses. However, the heterogeneity of product attributes results in undesired impediment for an efficient yet personalized e-commerce product brokering. Amid the assortment of product attributes, there are some intrinsic generic attributes having significant relation to a customer’s generic preference. This paper proposes a novel approach in the detection of generic product attributes through feature analysis. The objective is to provide an insight to the understanding of customers’ generic preference. Furthermore, a genetic algorithm is used to find the suitable feature weight set, hence reducing the rate of misclassification. A prototype has been implemented and the experimental results are promising

Representation and generation of plans using graph spectra

Numerical comparison of spaces with one another is often achieved with set scalar measures such as global and local integration, connectivity, etc., which capture a particular quality of the space but therefore lose much of the detail of its overall structure. More detailed methods such as graph edit distance are difficult to calculate, particularly for large plans. This paper proposes the use of the graph spectrum, or the ordered eigenvalues of a graph adjacency matrix, as a means to characterise the space as a whole. The result is a vector of high dimensionality that can be easily measured against others for detailed comparison. Several graph types are investigated, including boundary and axial representations, as are several methods for deriving the spectral vector. The effectiveness of these is evaluated using a genetic algorithm optimisation to generate plans to match a given spectrum, and evolution is seen to produce plans similar to the initial targets, even in very large search spaces. Results indicate that boundary graphs alone can capture the gross topological qualities of a space, but axial graphs are needed to indicate local relationships. Methods of scaling the spectra are investigated in relation to both global local changes to plan arrangement. For all graph types, the spectra were seen to capture local patterns of spatial arrangement even as global size is varied

Representation and generation of plans using graph spectra

Numerical comparison of spaces with one another is often achieved with set scalar measures such as global and local integration, connectivity, etc., which capture a particular quality of the space but therefore lose much of the detail of its overall structure. More detailed methods such as graph edit distance are difficult to calculate, particularly for large plans. This paper proposes the use of the graph spectrum, or the ordered eigenvalues of a graph adjacency matrix, as a means to characterise the space as a whole. The result is a vector of high dimensionality that can be easily measured against others for detailed comparison. Several graph types are investigated, including boundary and axial representations, as are several methods for deriving the spectral vector. The effectiveness of these is evaluated using a genetic algorithm optimisation to generate plans to match a given spectrum, and evolution is seen to produce plans similar to the initial targets, even in very large search spaces. Results indicate that boundary graphs alone can capture the gross topological qualities of a space, but axial graphs are needed to indicate local relationships. Methods of scaling the spectra are investigated in relation to both global local changes to plan arrangement. For all graph types, the spectra were seen to capture local patterns of spatial arrangement even as global size is varied