We mark up a corpus of LaTeX lecture notes semantically and expose them as Linked Data in XHTML+MathML+RDFa. Our application makes the resulting documents interactively browsable for students. Our ontology helps to answer queries from students and lecturers, and paves the path towards an integration of our corpus with external sites.

As one of the newest members in the field of artificial immune systems (AIS), the Dendritic Cell Algorithm (DCA) is based on behavioural models of natural dendritic cells (DCs). Unlike other AIS, the DCA does not rely on training data, instead domain or expert knowledge is required to predetermine the mapping between input signals from a particular instance to the three categories used by the DCA. This data preprocessing phase has received the criticism of having manually over-?tted the data to the algorithm, which is undesirable. Therefore, in this paper we have attempted to ascertain if it is possible to use principal component analysis (PCA) techniques to automatically categorise input data while still generating useful and accurate classication results. The integrated system is tested with a biometrics dataset for the stress recognition of automobile drivers. The experimental results have shown the application of PCA to the DCA for the purpose of automated data preprocessing is successful.

Dendritic cells are antigen presenting cells that provide a vital link between the innate and adaptive immune system. Research into this family of cells has revealed that they perform the role of coordinating T-cell based immune responses, both reactive and for generating tolerance. We have derived an algorithm based on the functionality of these cells, and have used the signals and differentiation pathways to build a control mechanism for an artificial immune system. We present our algorithmic details in addition to some preliminary results, where the algorithm was applied for the purpose of anomaly detection. We hope that this algorithm will eventually become the key component within a large, distributed immune system, based on sound immunological concepts.

This thesis investigates the use of problem-specific knowledge to enhance a genetic algorithm approach to multiple-choice optimisation problems.It shows that such information can significantly enhance performance, but that the choice of information and the way it is included are important factors for success.Two multiple-choice problems are considered.The first is constructing a feasible nurse roster that considers as many requests as possible.In the second problem, shops are allocated to locations in a mall subject to constraints and maximising the overall income.Genetic algorithms are chosen for their well-known robustness and ability to solve large and complex discrete optimisation problems.However, a survey of the literature reveals room for further research into generic ways to include constraints into a genetic algorithm framework.Hence, the main theme of this work is to balance feasibility and cost of solutions.In particular, co-operative co-evolution with hierarchical sub-populations, problem structure exploiting repair schemes and indirect genetic algorithms with self-adjusting decoder functions are identified as promising approaches.The research starts by applying standard genetic algorithms to the problems and explaining the failure of such approaches due to epistasis.To overcome this, problem-specific information is added in a variety of ways, some of which are designed to increase the number of feasible solutions found whilst others are intended to improve the quality of such solutions.As well as a theoretical discussion as to the underlying reasons for using each operator,extensive computational experiments are carried out on a variety of data.These show that the indirect approach relies less on problem structure and hence is easier to implement and superior in solution quality.

Pattern recognition is a central topic in Learning Theory with numerous applications such as voice and text recognition, image analysis, computer diagnosis. The statistical set-up in classification is the following: we are given an i.i.d. training set $(X_{1},Y_{1}),... (X_{n},Y_{n})$ where $X_{i}$ represents a feature and $Y_{i}\in \{0,1\}$ is a label attached to that feature. The underlying joint distribution of $(X,Y)$ is unknown, but we can learn about it from the training set and we aim at devising low error classifiers $f:X\to Y$ used to predict the label of new incoming features. Here we solve a quantum analogue of this problem, namely the classification of two arbitrary unknown qubit states. Given a number of `training' copies from each of the states, we would like to `learn' about them by performing a measurement on the training set. The outcome is then used to design mesurements for the classification of future systems with unknown labels. We find the asymptotically optimal classification strategy and show that typically, it performs strictly better than a plug-in strategy based on state estimation. The figure of merit is the excess risk which is the difference between the probability of error and the probability of error of the optimal measurement when the states are known, that is the Helstrom measurement. We show that the excess risk has rate $n^{-1}$ and compute the exact constant of the rate.

This paper proposes a method to construct an adaptive agent that is universal with respect to a given class of experts, where each expert is an agent that has been designed specifically for a particular environment. This adaptive control problem is formalized as the problem of minimizing the relative entropy of the adaptive agent from the expert that is most suitable for the unknown environment. If the agent is a passive observer, then the optimal solution is the well-known Bayesian predictor. However, if the agent is active, then its past actions need to be treated as causal interventions on the I/O stream rather than normal probability conditions. Here it is shown that the solution to this new variational problem is given by a stochastic controller called the Bayesian control rule, which implements adaptive behavior as a mixture of experts. Furthermore, it is shown that under mild assumptions, the Bayesian control rule converges to the control law of the most suitable expert.

The outcome of a functional genomics pipeline is usually a partial list of genomic features, ranked by their relevance in modelling biological phenotype in terms of a classification or regression model. Due to resampling protocols or just within a meta-analysis comparison, instead of one list it is often the case that sets of alternative feature lists (possibly of different lengths) are obtained. Here we introduce a method, based on the algebraic theory of symmetric groups, for studying the variability between lists ("list stability") in the case of lists of unequal length. We provide algorithms evaluating stability for lists embedded in the full feature set or just limited to the features occurring in the partial lists. The method is demonstrated first on synthetic data in a gene filtering task and then for finding gene profiles on a recent prostate cancer dataset.

This paper discusses the knowledge integration of clinical information extracted from distributed medical ontology in order to ameliorate a machine learning-based multi-label coding assignment system. The proposed approach is implemented using a decision tree based cascade hierarchical technique on the university hospital data for patients with Coronary Heart Disease (CHD). The preliminary results obtained show a satisfactory finding.

In density estimation task, maximum entropy model (Maxent) can effectively use reliable prior information via certain constraints, i.e., linear constraints without empirical parameters. However, reliable prior information is often insufficient, and the selection of uncertain constraints becomes necessary but poses considerable implementation complexity. Improper setting of uncertain constraints can result in overfitting or underfitting. To solve this problem, a generalization of Maxent, under Tsallis entropy framework, is proposed. The proposed method introduces a convex quadratic constraint for the correction of (expected) Tsallis entropy bias (TEB). Specifically, we demonstrate that the expected Tsallis entropy of sampling distributions is smaller than the Tsallis entropy of the underlying real distribution. This expected entropy reduction is exactly the (expected) TEB, which can be expressed by a closed-form formula and act as a consistent and unbiased correction. TEB indicates that the entropy of a specific sampling distribution should be increased accordingly. This entails a quantitative re-interpretation of the Maxent principle. By compensating TEB and meanwhile forcing the resulting distribution to be close to the sampling distribution, our generalized TEBC Maxent can be expected to alleviate the overfitting and underfitting. We also present a connection between TEB and Lidstone estimator. As a result, TEB-Lidstone estimator is developed by analytically identifying the rate of probability correction in Lidstone. Extensive empirical evaluation shows promising performance of both TEBC Maxent and TEB-Lidstone in comparison with various state-of-the-art density estimation methods.

We propose in this paper an exploratory analysis algorithm for functional data. The method partitions a set of functions into $K$ clusters and represents each cluster by a simple prototype (e.g., piecewise constant). The total number of segments in the prototypes, $P$, is chosen by the user and optimally distributed among the clusters via two dynamic programming algorithms. The practical relevance of the method is shown on two real world datasets.