A multi-objective strategy in genetic algorithms for gene selection of gene expression data

A microarray machine offers the capacity to measure the expression levels of thousands of genes simultaneously. It is used to collect information from tissue and cell samples regarding gene expression differences that could be useful for cancer classification. However, the urgent problems in the use of gene expression data are the availability of a huge number of genes relative to the small number of available samples, and the fact that many of the genes are not relevant to the classification. It has been shown that selecting a small subset of genes can lead to improved accuracy in the classification. Hence, this paper proposes a solution to the problems by using a multiobjective strategy in a genetic algorithm. This approach was tried on two benchmark gene expression data sets. It obtained encouraging results on those data sets as compared with an approach that used a single-objective strategy in a genetic algorithm. This work was presented in part at the 13th International Symposium on Artificial Life and Robotics, Oita, Japan, January 31–February 2, 2008     

Selecting informative genes from microarray data by using hybrid methods for cancer classification

Gene expression technology, namely microarrays, offers the ability to measure the expression levels of thousands of genes simultaneously in biological organisms. Microarray data are expected to be of significant help in the development of an efficient cancer diagnosis and classification platform. A major problem in these data is that the number of genes greatly exceeds the number of tissue samples. These data also have noisy genes. It has been shown in literature reviews that selecting a small subset of informative genes can lead to improved classification accuracy. Therefore, this paper aims to select a small subset of informative genes that are most relevant for cancer classification. To achieve this aim, an approach using two hybrid methods has been proposed. This approach is assessed and evaluated on two well-known microarray data sets, showing competitive results. This work was presented in part at the 13th International Symposium on Artificial Life and Robotics, Oita, Japan, January 31–February 2, 2008     

Refined mapping of a gene responsible for Fukuyama-type congenital muscular dystrophy: evidence for strong linkage disequilibrium

Fukuyama-type congenital muscular dystrophy (FCMD), the second most common form of childhood muscular dystrophy in Japan, is an autosomal recessive severe muscular dystrophy associated with an anomaly of the brain. After our initial mapping of the FCMD locus to chromosome 9q31-33, we further defined the locus within a region of approximately 5 cM between loci D9S127 and CA246, by homozygosity mapping in patients born to consanguineous marriages and by recombination analyses in other families. We also found evidence for strong linkage disequilibrium between FCMD and a polymorphic microsatellite marker, mfd220, which showed no recombination and a lod score of (Z) 17.49. A "111-bp" allele for the mfd220 locus was observed in 22 (34%) of 64 FCMD chromosomes, but it was present in only 1 of 120 normal chromosomes. This allelic association with FCMD was highly significant (chi 2 = 50.7; P < .0001). Hence, we suspect that the FCMD gene could lie within a few hundred kilobases of the mfd220 locus.     

Market prediction using machine learning based on social media specific features

Artificial Life and Robotics - In recent years, unspecified messages posted on social media have significantly affected the price fluctuations of online-traded products, such as stocks and virtual...     

Shape Reconstruction and Camera Self-Calibration Using Cast Shadows and Scene Geometries

Recently, various techniques of shape reconstruction using cast shadows have been proposed. These techniques have the advantage that they can be applied to various scenes, including outdoor scenes, without using special devices. Previously proposed techniques usually require calibration of camera parameters and light source positions, and such calibration processes limit the range of application of these techniques. In this paper, we propose a method to reconstruct 3D scenes even when the camera parameters or light source positions are unknown. The technique first recovers the shape with 4-DOF indeterminacy using coplanarities obtained by cast shadows of straight edges or visible planes in a scene, and then upgrades the shape using metric constraints obtained from the geometrical constraints in the scene. In order to circumvent the need for calibrations and special devices, we propose both linear and nonlinear methods in this paper. Experiments using simulated and real images verified the effectiveness of this technique.     

Damage to seagrass and seaweed beds in Matsushima Bay,Japan, caused by the huge tsunami of the Great East Japan Earthquake on 11 March 2011

Damage to seagrass and seaweed beds caused by the huge tsunami of the Great East Japan Earthquake on 11 March 2011 was investigated in Matsushima Bay, Miyagi Prefecture, Japan, by comparing satellite images taken before the tsunami in November 2009 and after the tsunami in May 2011. The results showed that the tsunami destroyed 220 ha of seagrass and seaweed beds, from 320 ha in 2009 to 100 ha just after the tsunami. Zostera marina beds on the sandy and muddy bottom were rather severely damaged compared with brown seaweed beds of Sargassum horneri on the rocky substrate. Substrates of the beds and directions of the tsunami seem to be responsible for the magnitude of the damage to the beds. Maps of the spatial distributions of the beds before and after the tsunami can provide information for the restoration of seagrass and seaweed beds as natural infrastructures of coastal fisheries resources.     

A new representation of systems with frictional unilateral constraints and its Baumgarte-like relaxation

This paper proposes a new representation of multibody mechanical systems involving three-dimensional frictional unilateral constraints. The new representation is of the form of a differential algebraic inclusion (DAI) employing a normal cone with a non-Euclidean, singular norm metric. It can be seen as a generalization of a differential algebraic equation (DAE) using Lagrange multipliers, which has been used to represent mechanical systems with equality constraints. The paper also presents an approach to approximate the aforementioned DAI by another form of DAI, which can be equivalently converted into an ordinary differential equation (ODE). The approach can be seen as a generalization of the Baumgarte stabilization, which was originally developed for DAEs. The new DAI representation and its ODE approximation are illustrated with some simple examples.     

Efficient learning of multiple context-free languages with multidimensional substitutability from positive data

Recently Clark and Eyraud (2007) [10] have shown that substitutable context-free languages, which capture an aspect of natural language phenomena, are efficiently identifiable in the limit from positive data. Generalizing their work, this paper presents a polynomial-time learning algorithm for new subclasses of multiple context-free languages with variants of substitutability.     

A pilot survey of 39 Victorian WWTP effluents using a high speed luminescent umu test in conjunction with a novel GC-MS-database technique for automatic identification of micropollutants

In 2007, samples of treated effluent were collected at point of discharge to the environment from 39 wastewater treatment plants (WWTPs) located across Victoria, Australia grouped by treatment type. Sample genotoxicity was assessed with a high-throughput luminescent umu test method using Salmonella typhimurium TL210 strain, with and without addition of a commercially available metabolic activation system. Samples were also screened using a gas chromatographic-mass spectrometric mass-structure database recognition method. A genotoxic response was observed in half of the samples tested without metabolic activation system (相似文献