To understand the relationship between genomic variations among population and complex diseases, it is essential to detect eQTLs which are associated with phenotypic effects. However, detecting eQTLs remains a challenge due to complex underlying mechanisms and the very large number of genetic loci involved compared to the number of samples. Thus, to address the problem, it is desirable to take advantage of the structure of the data and prior information about genomic locations such as conservation scores and transcription factor binding sites. In this paper, we propose a novel regularized regression approach for detecting eQTLs which takes into account related traits simultaneously while incorporating many regulatory features. We first present a Bayesian network for a multi-task learning problem that includes priors on SNPs, making it possible to estimate the significance of each covariate adaptively.

We present a novel method for multitask learning (MTL) based on {\it manifold regularization}: assume that all task parameters lie on a manifold. This is the generalization of a common assumption made in the existing literature: task parameters share a common {\it linear} subspace. One proposed method uses the projection distance from the manifold to regularize the task parameters. The manifold structure and the task parameters are learned using an alternating optimization framework. When the manifold structure is fixed, our method decomposes across tasks which can be learnt independently.

Steinwart was the first to prove universal consistency of support vector machine classification. His proof analyzed the'standard' support vector machine classifier, which is restricted to binary classification problems. In contrast, recent analysis has resulted in the common belief that several extensions of SVM classification to more than two classes are inconsistent. Our proof extends Steinwart's techniques to the multi-class case.

Robust low-level image features have been proven to be effective representations for a variety of visual recognition tasks such as object recognition and scene classification; but pixels, or even local image patches, carry little semantic meanings. For high level visual tasks, such low-level image representations are potentially not enough. In this paper, we propose a high-level image representation, called the Object Bank, where an image is represented as a scale invariant response map of a large number of pre-trained generic object detectors, blind to the testing dataset or visual task. Leveraging on the Object Bank representation, superior performances on high level visual recognition tasks can be achieved with simple off-the-shelf classifiers such as logistic regression and linear SVM. Sparsity algorithms make our representation more efficient and scalable for large scene datasets, and reveal semantically meaningful feature patterns.

Multi-task learning (MTL) improves the prediction performance on multiple, different but related, learning problems through shared parameters or representations. One of the most prominent multi-task learning algorithms is an extension to svms by Evgeniou et al. Although very elegant, multi-task svm is inherently restricted by the fact that support vector machines require each class to be addressed explicitly with its own weight vector which, in a multi-task setting, requires the different learning tasks to share the same set of classes. This paper proposes an alternative formulation for multi-task learning by extending the recently published large margin nearest neighbor (lmnn) algorithm to the MTL paradigm. Instead of relying on separating hyperplanes, its decision function is based on the nearest neighbor rule which inherently extends to many classes and becomes a natural fit for multitask learning.

Maximum entropy models have become popular statistical models in neuroscience and other areas in biology, and can be useful tools for obtaining estimates of mu- tual information in biological systems. However, maximum entropy models fit to small data sets can be subject to sampling bias; i.e. the true entropy of the data can be severely underestimated. Here we study the sampling properties of estimates of the entropy obtained from maximum entropy models. We show that if the data is generated by a distribution that lies in the model class, the bias is equal to the number of parameters divided by twice the number of observations. However, in practice, the true distribution is usually outside the model class, and we show here that this misspecification can lead to much larger bias. We provide a perturba- tive approximation of the maximally expected bias when the true model is out of model class, and we illustrate our results using numerical simulations of an Ising model; i.e. the second-order maximum entropy distribution on binary data.

A common approach for handling the complexity and inherent ambiguities of 3D human pose estimation is to use pose priors learned from training data. Existing approaches however, are either too simplistic (linear), too complex to learn, or can only learn latent spaces from "simple data", i.e., single activities such as walking or running. In this paper, we present an efficient stochastic gradient descent algorithm that is able to learn probabilistic non-linear latent spaces composed of multiple activities. Furthermore, we derive an incremental algorithm for the online setting which can update the latent space without extensive relearning. We demonstrate the effectiveness of our approach on the task of monocular and multi-view tracking and show that our approach outperforms the state-of-the-art.

Diagnosis of Alzheimer's disease (AD) at the early stage of the disease development is of great clinical importance. Current clinical assessment that relies primarily on cognitive measures proves low sensitivity and specificity. The fast growing neuroimaging techniques hold great promise. Research so far has focused on single neuroimaging modalities. However, as different modalities provide complementary measures for the same disease pathology, fusion of multi-modality data may increase the statistical power in identification of disease-related brain regions.

In many experiments, the data points collected live in high-dimensional observation spaces, yet can be assigned a set of labels or parameters. In electrophysiological recordings, for instance, the responses of populations of neurons generally depend on mixtures of experimentally controlled parameters. The heterogeneity and diversity of these parameter dependencies can make visualization and interpretation of such data extremely difficult. Standard dimensionality reduction techniques such as principal component analysis (PCA) can provide a succinct and complete description of the data, but the description is constructed independent of the relevant task variables and is often hard to interpret. Here, we start with the assumption that a particularly informative description is one that reveals the dependency of the high-dimensional data on the individual parameters.

We consider regularized risk minimization in a large dictionary of Reproducing kernel Hilbert Spaces (RKHSs) over which the target function has a sparse representation. This setting, commonly referred to as Sparse Multiple Kernel Learning (MKL), may be viewed as the non-parametric extension of group sparsity in linear models. While the two dominant algorithmic strands of sparse learning, namely convex relaxations using l1 norm (e.g., Lasso) and greedy methods (e.g., OMP), have both been rigorously extended for group sparsity, the sparse MKL literature has so farmainly adopted the former withmild empirical success. In this paper, we close this gap by proposing a Group-OMP based framework for sparse multiple kernel learning. Unlike l1-MKL, our approach decouples the sparsity regularizer (via a direct l0 constraint) from the smoothness regularizer (via RKHS norms) which leads to better empirical performance as well as a simpler optimization procedure that only requires a black-box single-kernel solver.