Approximation and Relaxation Approaches for Parallel and Distributed Machine Learning

Large scale machine learning requires tradeoffs. Commonly this tradeoff has led practitioners to choose simpler, less powerful models, e.g. linear models, in order to process more training examples in a limited time. In this work, we introduce parallelism to the training of non-linear models by leveraging a different tradeoff--approximation. We demonstrate various techniques by which non-linear models can be made amenable to larger data sets and significantly more training parallelism by strategically introducing approximation in certain optimization steps. For gradient boosted regression tree ensembles, we replace precise selection of tree splits with a coarse-grained, approximate split selection, yielding both faster sequential training and a significant increase in parallelism, in the distributed setting in particular. For metric learning with nearest neighbor classification, rather than explicitly train a neighborhood structure we leverage the implicit neighborhood structure induced by task-specific random forest classifiers, yielding a highly parallel method for metric learning. For support vector machines, we follow existing work to learn a reduced basis set with extremely high parallelism, particularly on GPUs, via existing linear algebra libraries. We believe these optimization tradeoffs are widely applicable wherever machine learning is put in practice in large scale settings. By carefully introducing approximation, we also introduce significantly higher parallelism and consequently can process more training examples for more iterations than competing exact methods. While seemingly learning the model with less precision, this tradeoff often yields noticeably higher accuracy under a restricted training time budget

A mixture model for the evolution of gene expression in non-homogeneous datasets

We address the challenge of assessing conservation of gene expression in complex, non-homogeneous datasets. Recent studies have demonstrated the success of probabilistic models in studying the evolution of gene expression in simple eukaryotic organisms such as yeast, for which measurements are typically scalar and independent. Models capable of studying expression evolution in much more complex organisms such as vertebrates are particularly important given the medical and scientific interest in species such as human and mouse. We present Brownian Factor Phylogenetic Analysis, a statistical model that makes a number of significant extensions to previous models to enable characterization of changes in expression among highly complex organisms. We demonstrate the efficacy of our method on a microarray dataset profiling diverse tissues from multiple vertebrate species. We anticipate that the model will be invaluable in the study of gene expression patterns in other diverse organisms as well, such as worms and insects