Self-supervised Transformer for Multivariate Clinical Time-Series with Missing Values

Multivariate time-series (MVTS) data are frequently observed in critical care settings and are typically characterized by excessive missingness and irregular time intervals. Existing approaches for learning representations in this domain handle such issues by either aggregation or imputation of values, which in-turn suppresses the fine-grained information and adds undesirable noise/overhead into the machine learning model. To tackle this challenge, we propose STraTS (Self-supervised Transformer for TimeSeries) model which bypasses these pitfalls by treating time-series as a set of observation triplets instead of using the traditional dense matrix representation. It employs a novel Continuous Value Embedding (CVE) technique to encode continuous time and variable values without the need for discretization. It is composed of a Transformer component with Multi-head attention layers which enables it to learn contextual triplet embeddings while avoiding problems of recurrence and vanishing gradients that occur in recurrent architectures. Many healthcare datasets also suffer from the limited availability of labeled data. Our model utilizes self-supervision by leveraging unlabeled data to learn better representations by performing time-series forecasting as a self-supervision task. Experiments on real-world multivariate clinical time-series benchmark datasets show that STraTS shows better prediction performance than state-of-the-art methods for mortality prediction, especially when labeled data is limited. Finally, we also present an interpretable version of STraTS which can identify important measurements in the time-series data.

Self-Supervised Graph Learning with Hyperbolic Embedding for Temporal Health Event Prediction

Electronic Health Records (EHR) have been heavily used in modern healthcare systems for recording patients' admission information to hospitals. Many data-driven approaches employ temporal features in EHR for predicting specific diseases, readmission times, or diagnoses of patients. However, most existing predictive models cannot fully utilize EHR data, due to an inherent lack of labels in supervised training for some temporal events. Moreover, it is hard for existing works to simultaneously provide generic and personalized interpretability. To address these challenges, we first propose a hyperbolic embedding method with information flow to pre-train medical code representations in a hierarchical structure. We incorporate these pre-trained representations into a graph neural network to detect disease complications, and design a multi-level attention method to compute the contributions of particular diseases and admissions, thus enhancing personalized interpretability. We present a new hierarchy-enhanced historical prediction proxy task in our self-supervised learning framework to fully utilize EHR data and exploit medical domain knowledge. We conduct a comprehensive set of experiments and case studies on widely used publicly available EHR datasets to verify the effectiveness of our model. The results demonstrate our model's strengths in both predictive tasks and interpretable abilities.

Collaborative Graph Learning with Auxiliary Text for Temporal Event Prediction in Healthcare

Accurate and explainable health event predictions are becoming crucial for healthcare providers to develop care plans for patients. The availability of electronic health records (EHR) has enabled machine learning advances in providing these predictions. However, many deep learning based methods are not satisfactory in solving several key challenges: 1) effectively utilizing disease domain knowledge; 2) collaboratively learning representations of patients and diseases; and 3) incorporating unstructured text. To address these issues, we propose a collaborative graph learning model to explore patient-disease interactions and medical domain knowledge. Our solution is able to capture structural features of both patients and diseases. The proposed model also utilizes unstructured text data by employing an attention regulation strategy and then integrates attentive text features into a sequential learning process. We conduct extensive experiments on two important healthcare problems to show the competitive prediction performance of the proposed method compared with various state-of-the-art models. We also confirm the effectiveness of learned representations and model interpretability by a set of ablation and case studies.

Jekyll: Attacking Medical Image Diagnostics using Deep Generative Models

Advances in deep neural networks (DNNs) have shown tremendous promise in the medical domain. However, the deep learning tools that are helping the domain, can also be used against it. Given the prevalence of fraud in the healthcare domain, it is important to consider the adversarial use of DNNs in manipulating sensitive data that is crucial to patient healthcare. In this work, we present the design and implementation of a DNN-based image translation attack on biomedical imagery. More specifically, we propose Jekyll, a neural style transfer framework that takes as input a biomedical image of a patient and translates it to a new image that indicates an attacker-chosen disease condition. The potential for fraudulent claims based on such generated 'fake' medical images is significant, and we demonstrate successful attacks on both X-rays and retinal fundus image modalities. We show that these attacks manage to mislead both medical professionals and algorithmic detection schemes. Lastly, we also investigate defensive measures based on machine learning to detect images generated by Jekyll.

T-Miner: A Generative Approach to Defend Against Trojan Attacks on DNN-based Text Classification

Deep Neural Network (DNN) classifiers are known to be vulnerable to Trojan or backdoor attacks, where the classifier is manipulated such that it misclassifies any input containing an attacker-determined Trojan trigger. Backdoors compromise a model's integrity, thereby posing a severe threat to the landscape of DNN-based classification. While multiple defenses against such attacks exist for classifiers in the image domain, there have been limited efforts to protect classifiers in the text domain. We present Trojan-Miner (T-Miner) -- a defense framework for Trojan attacks on DNN-based text classifiers. T-Miner employs a sequence-to-sequence (seq-2-seq) generative model that probes the suspicious classifier and learns to produce text sequences that are likely to contain the Trojan trigger. T-Miner then analyzes the text produced by the generative model to determine if they contain trigger phrases, and correspondingly, whether the tested classifier has a backdoor. T-Miner requires no access to the training dataset or clean inputs of the suspicious classifier, and instead uses synthetically crafted "nonsensical" text inputs to train the generative model. We extensively evaluate T-Miner on 1100 model instances spanning 3 ubiquitous DNN model architectures, 5 different classification tasks, and a variety of trigger phrases. We show that T-Miner detects Trojan and clean models with a 98.75% overall accuracy, while achieving low false positives on clean models. We also show that T-Miner is robust against a variety of targeted, advanced attacks from an adaptive attacker.

Self-Supervised Hyperboloid Representations from Logical Queries over Knowledge Graphs

Knowledge Graphs (KGs) are ubiquitous structures for information storagein several real-world applications such as web search, e-commerce, social networks, and biology. Querying KGs remains a foundational and challenging problem due to their size and complexity. Promising approaches to tackle this problem include embedding the KG units (e.g., entities and relations) in a Euclidean space such that the query embedding contains the information relevant to its results. These approaches, however, fail to capture the hierarchical nature and semantic information of the entities present in the graph. Additionally, most of these approaches only utilize multi-hop queries (that can be modeled by simple translation operations) to learn embeddings and ignore more complex operations such as intersection and union of simpler queries. To tackle such complex operations, in this paper, we formulate KG representation learning as a self-supervised logical query reasoning problem that utilizes translation, intersection and union queries over KGs. We propose Hyperboloid Embeddings (HypE), a novel self-supervised dynamic reasoning framework, that utilizes positive first-order existential queries on a KG to learn representations of its entities and relations as hyperboloids in a Poincar\'e ball. HypE models the positive first-order queries as geometrical translation, intersection, and union. For the problem of KG reasoning in real-world datasets, the proposed HypE model significantly outperforms the state-of-the art results. We also apply HypE to an anomaly detection task on a popular e-commerce website product taxonomy as well as hierarchically organized web articles and demonstrate significant performance improvements compared to existing baseline methods. Finally, we also visualize the learned HypE embeddings in a Poincar\'e ball to clearly interpret and comprehend the representation space.

Differentially Private Synthetic Medical Data Generation using Convolutional GANs

Deep learning models have demonstrated superior performance in several application problems, such as image classification and speech processing. However, creating a deep learning model using health record data requires addressing certain privacy challenges that bring unique concerns to researchers working in this domain. One effective way to handle such private data issues is to generate realistic synthetic data that can provide practically acceptable data quality and correspondingly the model performance. To tackle this challenge, we develop a differentially private framework for synthetic data generation using R\'enyi differential privacy. Our approach builds on convolutional autoencoders and convolutional generative adversarial networks to preserve some of the critical characteristics of the generated synthetic data. In addition, our model can also capture the temporal information and feature correlations that might be present in the original data. We demonstrate that our model outperforms existing state-of-the-art models under the same privacy budget using several publicly available benchmark medical datasets in both supervised and unsupervised settings.

Deliberate Self-Attention Network with Uncertainty Estimation for Multi-Aspect Review Rating Prediction

In recent years, several online platforms have seen a rapid increase in the number of review systems that request users to provide aspect-level feedback. Multi-Aspect Rating Prediction (MARP), where the goal is to predict the ratings from a review at an individual aspect level, has become a challenging and an imminent problem. To tackle this challenge, we propose a deliberate self-attention deep neural network model, named as FEDAR, for the MARP problem, which can achieve competitive performance while also being able to interpret the predictions made. As opposed to the previous studies, which make use of hand-crafted keywords to determine aspects in sentiment predictions, our model does not suffer from human bias issues since aspect keywords are automatically detected through a self-attention mechanism. FEDAR is equipped with a highway word embedding layer to transfer knowledge from pre-trained word embeddings, an RNN encoder layer with output features enriched by pooling and factorization techniques, and a deliberate self-attention layer. In addition, we also propose an Attention-driven Keywords Ranking (AKR) method, which can automatically extract aspect-level sentiment-related keywords from the review corpus based on the attention weights. Since crowdsourcing annotation can be an alternate way to recover missing ratings of reviews, we propose a LEcture-AuDience (LEAD) strategy to estimate model uncertainty in the context of multi-task learning, so that valuable human resources can focus on the most uncertain predictions. Our extensive set of experiments on different DMSC datasets demonstrate the superiority of the proposed FEDAR and LEAD models. Visualization of aspect-level sentiment keywords demonstrate the interpretability of our model and effectiveness of our AKR method.

A Simple and Effective Self-Supervised Contrastive Learning Framework for Aspect Detection

Unsupervised aspect detection (UAD) aims at automatically extracting interpretable aspects and identifying aspect-specific segments (such as sentences) from online reviews. However, recent deep learning-based topic models, specifically aspect-based autoencoder, suffer from several problems, such as extracting noisy aspects and poorly mapping aspects discovered by models to the aspects of interest. To tackle these challenges, in this paper, we first propose a self-supervised contrastive learning framework and an attention-based model equipped with a novel smooth self-attention (SSA) module for the UAD task in order to learn better representations for aspects and review segments. Secondly, we introduce a high-resolution selective mapping (HRSMap) method to efficiently assign aspects discovered by the model to aspects of interest. We also propose using a knowledge distilling technique to further improve the aspect detection performance. Our methods outperform several recent unsupervised and weakly supervised approaches on publicly available benchmark user review datasets. Aspect interpretation results show that extracted aspects are meaningful, have good coverage, and can be easily mapped to aspects of interest. Ablation studies and attention weight visualization also demonstrate the effectiveness of SSA and the knowledge distilling method.