A multi-view approach to cDNA micro-array analysis

The official published version can be obtained from the link below.Microarray has emerged as a powerful technology that enables biologists to study thousands of genes simultaneously, therefore, to obtain a better understanding of the gene interaction and regulation mechanisms. This paper is concerned with improving the processes involved in the analysis of microarray image data. The main focus is to clarify an image's feature space in an unsupervised manner. In this paper, the Image Transformation Engine (ITE), combined with different filters, is investigated. The proposed methods are applied to a set of real-world cDNA images. The MatCNN toolbox is used during the segmentation process. Quantitative comparisons between different filters are carried out. It is shown that the CLD filter is the best one to be applied with the ITE.This work was supported in part by the Engineering and Physical Sciences Research Council (EPSRC) of the UK under Grant GR/S27658/01, the National Science Foundation of China under Innovative Grant 70621001, Chinese Academy of Sciences under Innovative Group Overseas Partnership Grant, the BHP Billiton Cooperation of Australia Grant, the International Science and Technology Cooperation Project of China under Grant 2009DFA32050 and the Alexander von Humboldt Foundation of Germany

Adaptive design of delta sigma modulators

In this thesis, a genetic algorithm based on differential evolution (DE) is used to generate delta sigma modulator (DSM) noise transfer functions (NTFs). These NTFs outperform those generated by an iterative approach described by Schreier and implemented in the delsig Matlab toolbox. Several lowpass and bandpass DSMs, as well as DSM\u27s designed specifically for and very low intermediate frequency (VLIF) receivers are designed using the algorithm developed in this thesis and compared to designs made using the delsig toolbox. The NTFs designed using the DE algorithm always have a higher dynamic range and signal to noise ratio than those designed using the delsig toolbox

Open-ended evolution to discover analogue circuits for beyond conventional applications

This is the author's accepted manuscript. The final publication is available at Springer via http://dx.doi.org/10.1007/s10710-012-9163-8. Copyright @ Springer 2012.Analogue circuits synthesised by means of open-ended evolutionary algorithms often have unconventional designs. However, these circuits are typically highly compact, and the general nature of the evolutionary search methodology allows such designs to be used in many applications. Previous work on the evolutionary design of analogue circuits has focused on circuits that lie well within analogue application domain. In contrast, our paper considers the evolution of analogue circuits that are usually synthesised in digital logic. We have developed four computational circuits, two voltage distributor circuits and a time interval metre circuit. The approach, despite its simplicity, succeeds over the design tasks owing to the employment of substructure reuse and incremental evolution. Our findings expand the range of applications that are considered suitable for evolutionary electronics

Genetic algorithms for designing digital filters

This thesis presents a method of adapting IIR filters implemented as lattice structures using a Genetic Algorithm (GA), called ZGA. This method addresses some of the difficulties encountered with existing methods of adaptation, providing guaranteed filter stability and the ability to search multi-modal error surfaces. ZGA mainly focuses on convergence improvement in respects of crossover and mutation operators. Four kinds of crossover methods are used to scan as much as possible the potential solution area, only the best of them will be taken as ZGA crossover offspring. And ZGA mutation takes the best of three mutation results as final mutation offspring. Simulation results are presented, demonstrating the suitability of ZGA to the problem of IIR system identification and comparing with the results of Standard GA, Genitor and NGA

Measurements, Models, Systems and Design

531 s.

Adaptive non linear system identification and channel equalization usinf functional link artificial neural network

In system theory, characterization and identification are fundamental problems. When the plant behavior is completely unknown, it may be characterized using certain model and then, its identification may be carried out with some artificial neural networks(ANN) like multilayer perceptron(MLP) or functional link artificial neural network(FLANN) using some learning rules such as back propagation (BP) algorithm. They offer flexibility, adaptability and versatility, so that a variety of approaches may be used to meet a specific goal, depending upon the circumstances and the requirements of the design specifications. The primary aim of the present thesis is to provide a framework for the systematic design of adaptation laws for nonlinear system identification and channel equalization. While constructing an artificial neural network the designer is often faced with the problem of choosing a network of the right size for the task. The advantages of using a smaller neural network are cheaper cost of computation and better generalization ability. However, a network which is too small may never solve the problem, while a larger network may even have the advantage of a faster learning rate. Thus it makes sense to start with a large network and then reduce its size. For this reason a Genetic Algorithm (GA) based pruning strategy is reported. GA is based upon the process of natural selection and does not require error gradient statistics. As a consequence, a GA is able to find a global error minimum. Transmission bandwidth is one of the most precious resources in digital communication systems. Communication channels are usually modeled as band-limited linear finite impulse response (FIR) filters with low pass frequency response. When the amplitude and the envelope delay response are not constant within the bandwidth of the filter, the channel distorts the transmitted signal causing intersymbol interference (ISI). The addition of noise during propagation also degrades the quality of the received signal. All the signal processing methods used at the receiver's end to compensate the introduced channel distortion and recover the transmitted symbols are referred as channel equalization techniques.When the nonlinearity associated with the system or the channel is more the number of branches in FLANN increases even some cases give poor performance. To decrease the number of branches and increase the performance a two stage FLANN called cascaded FLANN (CFLANN) is proposed.This thesis presents a comprehensive study covering artificial neural network (ANN) implementation for nonlinear system identification and channel equalization. Three ANN structures, MLP, FLANN, CFLANN and their conventional gradient-descent training methods are extensively studied. Simulation results demonstrate that FLANN and CFLANN methods are directly applicable for a large class of nonlinear control systems and communication problems

The application of genetic algorithms to the adaptation of IIR filters

The adaptation of an IIR filter is a very difficult problem due to its non-quadratic performance surface and potential instability. Conventional adaptive IIR algorithms suffer from potential instability problems and a high cost for stability monitoring. Therefore, there is much interest in adaptive IIR filters based on alternative algorithms. Genetic algorithms are a family of search algorithms based on natural selection and genetics. They have been successfully used in many different areas. Genetic algorithms applied to the adaptation of IIR filtering problems are studied in this thesis, and show that the genetic algorithm approach has a number of advantages over conventional gradient algorithms, particularly, for the adaptation of high order adaptive IIR filters, IIR filters with poles close to the unit circle and IIR filters with multi-modal error surfaces. The conventional gradient algorithms have difficulty solving these problems. Coefficient results are presented for various orders of IIR filters in this thesis. In the computer simulations presented in this thesis, the direct, cascade, parallel and lattice form IIR filter structures have been used and compared. The lattice form IIR filter structure shows its superiority over the cascade and parallel form IIR filter structures in terms of its mean square error convergence performance

Learning algorithms for adaptive digital filtering

In this thesis, we consider the problem of parameter optimisation in adaptive digital filtering. Adaptive digital filtering can be accomplished using both Finite Impulse Response (FIR) filters and Infinite Impulse Response Filters (IIR) filters. Adaptive FIR filtering algorithms are well established. However, the potential computational advantages of IIR filters has led to an increase in research on adaptive IIR filtering algorithms. These algorithms are studied in detail in this thesis and the limitations of current adaptive IIR filtering algorithms are identified. New approaches to adaptive IIR filtering using intelligent learning algorithms are proposed. These include Stochastic Learning Automata, Evolutionary Algorithms and Annealing Algorithms. Each of these techniques are used for the filtering problem and simulation results are presented showing the performance of the algorithms for adaptive IIR filtering. The relative merits and demerits of the different schemes are discussed. Two practical applications of adaptive IIR filtering are simulated and results of using the new adaptive strategies are presented. Other than the new approaches used, two new hybrid schemes are proposed based on concepts from genetic algorithms and annealing. It is shown with the help of simulation studies, that these hybrid schemes provide a superior performance to the exclusive use of any one scheme