Multiple Sclerosis Severity Classification From Clinical Text

Multiple Sclerosis (MS) is a chronic, inflammatory and degenerative neurological disease, which is monitored by a specialist using the Expanded Disability Status Scale (EDSS) and recorded in unstructured text in the form of a neurology consult note. An EDSS measurement contains an overall "EDSS" score and several functional subscores. Typically, expert knowledge is required to interpret consult notes and generate these scores. Previous approaches used limited context length Word2Vec embeddings and keyword searches to predict scores given a consult note, but often failed when scores were not explicitly stated. In this work, we present MS-BERT, the first publicly available transformer model trained on real clinical data other than MIMIC. Next, we present MSBC, a classifier that applies MS-BERT to generate embeddings and predict EDSS and functional subscores. Lastly, we explore combining MSBC with other models through the use of Snorkel to generate scores for unlabelled consult notes. MSBC achieves state-of-the-art performance on all metrics and prediction tasks and outperforms the models generated from the Snorkel ensemble. We improve Macro-F1 by 0.12 (to 0.88) for predicting EDSS and on average by 0.29 (to 0.63) for predicting functional subscores over previous Word2Vec CNN and rule-based approaches.

Kernelized Capsule Networks

Capsule Networks attempt to represent patterns in images in a way that preserves hierarchical spatial relationships. Additionally, research has demonstrated that these techniques may be robust against adversarial perturbations. We present an improvement to training capsule networks with added robustness via non-parametric kernel methods. The representations learned through the capsule network are used to construct covariance kernels for Gaussian processes (GPs). We demonstrate that this approach achieves comparable prediction performance to Capsule Networks while improving robustness to adversarial perturbations and providing a meaningful measure of uncertainty that may aid in the detection of adversarial inputs.

Interpretable Reinforcement Learning via Differentiable Decision Trees

Decision trees are ubiquitous in machine learning for their ease of use and interpretability; however, they are not typically implemented in reinforcement learning because they cannot be updated via stochastic gradient descent. Traditional applications of decision trees for reinforcement learning have focused instead on making commitments to decision boundaries as the tree is grown one layer at a time. We overcome this critical limitation by allowing for a gradient update over the entire tree structure that improves sample complexity when a tree is fuzzy and interpretability when sharp. We offer three key contributions towards this goal. First, we motivate the need for policy gradient-based learning by examining the theoretical properties of gradient descent over differentiable decision trees. Second, we introduce a regularization framework that yields interpretability via sparsity in the tree structure. Third, we demonstrate the ability to construct a decision tree via policy gradient in canonical reinforcement learning domains and supervised learning benchmarks.

Robust and Efficient Transfer Learning with Hidden-Parameter Markov Decision Processes

We introduce a new formulation of the Hidden Parameter Markov Decision Process (HiP-MDP), a framework for modeling families of related tasks using low-dimensional latent embeddings. Our new framework correctly models the joint uncertainty in the latent parameters and the state space. We also replace the original Gaussian Process-based model with a Bayesian Neural Network, enabling more scalable inference. Thus, we expand the scope of the HiP-MDP to applications with higher dimensions and more complex dynamics.

Transfer Learning Across Patient Variations with Hidden Parameter Markov Decision Processes

Due to physiological variation, patients diagnosed with the same condition may exhibit divergent, but related, responses to the same treatments. Hidden Parameter Markov Decision Processes (HiP-MDPs) tackle this transfer-learning problem by embedding these tasks into a low-dimensional space. However, the original formulation of HiP-MDP had a critical flaw: the embedding uncertainty was modeled independently of the agent's state uncertainty, requiring an unnatural training procedure in which all tasks visited every part of the state space---possible for robots that can be moved to a particular location, impossible for human patients. We update the HiP-MDP framework and extend it to more robustly develop personalized medicine strategies for HIV treatment.