The protein folding problem has been attacked from many directions. One set of approaches tries to find out correlations between short subsequences of proteins and the structures they form, using empirical information from crystallographic databases. AI research has repeatedly demonstrated the importance of representation in making these kinds of inferences. In this chapter, we describe an attempt to find a good representation for protein substructure. Our goal is to represent protein structures in such a way that they can, on the hand, reflect the enormous complexity and variety of different protein structures, and yet on the other hand facilitate the identification of similar substructures across different proteins.

The editors have provided him with special introductory sections as a ing guide to a thorough understand of the reports.

Empirical rule learning and analytic Most learning is based on experience, and this requires a learning methods have predominantly used the first path, representation for the experiential input given to the whereas connectionist systems have relied on the second.

Every year, as computers become more powerful and less expensive, increasing amounts of health care data are recorded on them. Motivation for collecting data routinely into ambulatory and hospital medical record systems comes from all quarters. Health practitioners require sets of data for clinical management of individual patients. Hospital administrators require them for billing and resource allocation.

Kernel ridge regression (KRR) is a standard method for performing non-parametric regression over reproducing kernel Hilbert spaces. Given $n$ samples, the time and space complexity of computing the KRR estimate scale as $\mathcal{O}(n^3)$ and $\mathcal{O}(n^2)$ respectively, and so is prohibitive in many cases. We propose approximations of KRR based on $m$-dimensional randomized sketches of the kernel matrix, and study how small the projection dimension $m$ can be chosen while still preserving minimax optimality of the approximate KRR estimate. For various classes of randomized sketches, including those based on Gaussian and randomized Hadamard matrices, we prove that it suffices to choose the sketch dimension $m$ proportional to the statistical dimension (modulo logarithmic factors). Thus, we obtain fast and minimax optimal approximations to the KRR estimate for non-parametric regression.

Distance weighted discrimination (DWD) was originally proposed to handle the data piling issue in the support vector machine. In this paper, we consider the sparse penalized DWD for high-dimensional classification. The state-of-the-art algorithm for solving the standard DWD is based on second-order cone programming, however such an algorithm does not work well for the sparse penalized DWD with high-dimensional data. In order to overcome the challenging computation difficulty, we develop a very efficient algorithm to compute the solution path of the sparse DWD at a given fine grid of regularization parameters. We implement the algorithm in a publicly available R package sdwd. We conduct extensive numerical experiments to demonstrate the computational efficiency and classification performance of our method.

The Nearest subspace classifier (NSS) finds an estimation of the underlying subspace within each class and assigns data points to the class that corresponds to its nearest subspace. This paper mainly studies how well NSS can be generalized to new samples. It is proved that NSS is strongly consistent under certain assumptions. For completeness, NSS is evaluated through experiments on various simulated and real data sets, in comparison with some other linear model based classifiers. It is also shown that NSS can obtain effective classification results and is very efficient, especially for large scale data sets.

We prove new fast learning rates for the one-vs-all multiclass plug-in classifiers trained either from exponentially strongly mixing data or from data generated by a converging drifting distribution. These are two typical scenarios where training data are not iid. The learning rates are obtained under a multiclass version of Tsybakov's margin assumption, a type of low-noise assumption, and do not depend on the number of classes. Our results are general and include a previous result for binary-class plug-in classifiers with iid data as a special case. In contrast to previous works for least squares SVMs under the binary-class setting, our results retain the optimal learning rate in the iid case.

Nonnegative matrix factorization (NMF) is a powerful class of feature extraction techniques that has been successfully applied in many fields, namely in signal and image processing. Current NMF techniques have been limited to a single-objective problem in either its linear or nonlinear kernel-based formulation. In this paper, we propose to revisit the NMF as a multi-objective problem, in particular a bi-objective one, where the objective functions defined in both input and feature spaces are taken into account. By taking the advantage of the sum-weighted method from the literature of multi-objective optimization, the proposed bi-objective NMF determines a set of nondominated, Pareto optimal, solutions instead of a single optimal decomposition. Moreover, the corresponding Pareto front is studied and approximated. Experimental results on unmixing real hyperspectral images confirm the efficiency of the proposed bi-objective NMF compared with the state-of-the-art methods.

This paper considers the problem of subspace clustering under noise. Specifically, we study the behavior of Sparse Subspace Clustering (SSC) when either adversarial or random noise is added to the unlabelled input data points, which are assumed to be in a union of low-dimensional subspaces. We show that a modified version of SSC is \emph{provably effective} in correctly identifying the underlying subspaces, even with noisy data. This extends theoretical guarantee of this algorithm to more practical settings and provides justification to the success of SSC in a class of real applications.