Despite recent advances, Automatic Speech Recognition (ASR) systems are still far from perfect. Typical errors include acronyms, named entities and domain-specific special words for which little or no data is available. To address the problem of recognizing these words, we propose an self-supervised continual learning approach. Given the audio of a lecture talk with corresponding slides, we bias the model towards decoding new words from the slides by using a memory-enhanced ASR model from previous work. Then, we perform inference on the talk, collecting utterances that contain detected new words into an adaptation dataset. Continual learning is then performed on this set by adapting low-rank matrix weights added to each weight matrix of the model. The whole procedure is iterated for many talks. We show that with this approach, we obtain increasing performance on the new words when they occur more frequently (more than 80% recall) while preserving the general performance of the model.

This study introduces a novel methodology for modelling patient emotions from online patient experience narratives. We employed metadata network topic modelling to analyse patient-reported experiences from Care Opinion, revealing key emotional themes linked to patient-caregiver interactions and clinical outcomes. We develop a probabilistic, context-specific emotion recommender system capable of predicting both multilabel emotions and binary sentiments using a naive Bayes classifier using contextually meaningful topics as predictors. The superior performance of our predicted emotions under this model compared to baseline models was assessed using the information retrieval metrics nDCG and Q-measure, and our predicted sentiments achieved an F1 score of 0.921, significantly outperforming standard sentiment lexicons. This method offers a transparent, cost-effective way to understand patient feedback, enhancing traditional collection methods and informing individualised patient care. Our findings are accessible via an R package and interactive dashboard, providing valuable tools for healthcare researchers and practitioners.

While extensive guidance exists for ensuring the reproducibility of one's own study, there is little discussion regarding the reproduction and replication of external studies within one's own research. To initiate this discussion, drawing lessons from our experience reproducing an operational product for predicting tropical cyclogenesis, we present a two-dimensional framework to offer guidance on reproduction and replication. Our framework, representing model fitting on one axis and its use in inference on the other, builds upon three key aspects: the dataset, the metrics, and the model itself. By assessing the trajectories of our studies on this 2D plane, we can better inform the claims made using our research. Additionally, we use this framework to contextualize the utility of benchmark datasets in the atmospheric sciences. Our two-dimensional framework provides a tool for researchers, especially early career researchers, to incorporate prior work in their own research and to inform the claims they can make in this context.

Utilizing state-of-the-art Large Language Models (LLMs), automatic code generation models play a pivotal role in enhancing the productivity of software development procedures. As the adoption of LLMs becomes more widespread in software coding ecosystems, a pressing issue has emerged: does the generated code contain social bias and unfairness, such as those related to age, gender, and race? This issue concerns the integrity, fairness, and ethical foundation of software applications that depend on the code generated by these models, yet is under-explored in the literature. This paper presents a novel bias testing framework that is specifically designed for code generation tasks. Based on this framework, we conduct an extensive evaluation of the bias in code generated by five state-of-the-art LLMs. Our findings reveal that 20.29% to 44.93% code functions generated by the models under study are biased when handling bias sensitive tasks (i.e., tasks that involve sensitive attributes such as age and gender). This indicates that the existing LLMs can be unfair in code generation, posing risks of unintended and harmful software behaviors. To mitigate bias for code generation models, we evaluate five bias mitigation prompt strategies, i.e., utilizing bias testing results to refine the code (zero-shot), one-, few-shot, and two Chain-of-Thought (CoT) prompts. Our evaluation results illustrate that these strategies are all effective in mitigating bias. Overall, one-shot and few-shot learning are the two most effective. For GPT-4, 80% to 90% code bias can be removed with one-shot learning.

The goal of Causal Discovery is to find automated search methods for learning causal structures from observational data. In some cases all variables of the interested causal mechanism are measured, and the task is to predict the effects one measured variable has on another. In contrast, sometimes the variables of primary interest are not directly observable but instead inferred from their manifestations in the data. These are referred to as latent variables. One commonly known example is the psychological construct of intelligence, which cannot directly measured so researchers try to assess through various indicators such as IQ tests. In this case, casual discovery algorithms can uncover underlying patterns and structures to reveal the causal connections between the latent variables and between the latent and observed variables. This thesis focuses on two questions in causal discovery: providing an alternative definition of k-Triangle Faithfulness that (i) is weaker than strong faithfulness when applied to the Gaussian family of distributions, (ii) can be applied to non-Gaussian families of distributions, and (iii) under the assumption that the modified version of Strong Faithfulness holds, can be used to show the uniform consistency of a modified causal discovery algorithm; relaxing the sufficiency assumption to learn causal structures with latent variables. Given the importance of inferring cause-and-effect relationships for understanding and forecasting complex systems, the work in this thesis of relaxing various simplification assumptions is expected to extend the causal discovery method to be applicable in a wider range with diversified causal mechanism and statistical phenomena.

Real-world data often exhibits bias, imbalance, and privacy risks. Synthetic datasets have emerged to address these issues. This paradigm relies on generative AI models to generate unbiased, privacy-preserving data while maintaining fidelity to the original data. However, assessing the trustworthiness of synthetic datasets and models is a critical challenge. We introduce a holistic auditing framework that comprehensively evaluates synthetic datasets and AI models. It focuses on preventing bias and discrimination, ensures fidelity to the source data, assesses utility, robustness, and privacy preservation. We demonstrate the framework's effectiveness by auditing various generative models across diverse use cases like education, healthcare, banking, and human resources, spanning different data modalities such as tabular, time-series, vision, and natural language. This holistic assessment is essential for compliance with regulatory safeguards. We introduce a trustworthiness index to rank synthetic datasets based on their safeguards trade-offs. Furthermore, we present a trustworthiness-driven model selection and cross-validation process during training, exemplified with "TrustFormers" across various data types. This approach allows for controllable trustworthiness trade-offs in synthetic data creation. Our auditing framework fosters collaboration among stakeholders, including data scientists, governance experts, internal reviewers, external certifiers, and regulators. This transparent reporting should become a standard practice to prevent bias, discrimination, and privacy violations, ensuring compliance with policies and providing accountability, safety, and performance guarantees.

Spatial reasoning tasks in multi-agent environments such as event prediction, agent type identification, or missing data imputation are important for multiple applications (e.g., autonomous surveillance over sensor networks and subtasks for reinforcement learning (RL)). StarCraft II game replays encode intelligent (and adversarial) multi-agent behavior and could provide a testbed for these tasks; however, extracting simple and standardized representations for prototyping these tasks is laborious and hinders reproducibility. In contrast, MNIST and CIFAR10, despite their extreme simplicity, have enabled rapid prototyping and reproducibility of ML methods. Following the simplicity of these datasets, we construct a benchmark spatial reasoning dataset based on StarCraft II replays that exhibit complex multi-agent behaviors, while still being as easy to use as MNIST and CIFAR10. Specifically, we carefully summarize a window of 255 consecutive game states to create 3.6 million summary images from 60,000 replays, including all relevant metadata such as game outcome and player races. We develop three formats of decreasing complexity: Hyperspectral images that include one channel for every unit type (similar to multispectral geospatial images), RGB images that mimic CIFAR10, and grayscale images that mimic MNIST. We show how this dataset can be used for prototyping spatial reasoning methods. All datasets, code for extraction, and code for dataset loading can be found at https://starcraftdata.davidinouye.com

In this manuscript, we present various proposed methods estimate the prevalence of disease, a critical prerequisite for the adequate interpretation of screening tests. To address the limitations of these approaches, which revolve primarily around their a posteriori nature, we introduce a novel method to estimate the pretest probability of disease, a priori, utilizing the Logit function from the logistic regression model. This approach is a modification of McGee's heuristic, originally designed for estimating the posttest probability of disease. In a patient presenting with $n_\theta$ signs or symptoms, the minimal bound of the pretest probability, $\phi$, can be approximated by: $\phi \approx \frac{1}{5}{ln\left[\displaystyle\prod_{\theta=1}^{i}\kappa_\theta\right]}$ where $ln$ is the natural logarithm, and $\kappa_\theta$ is the likelihood ratio associated with the sign or symptom in question.

When planning with an inaccurate dynamics model, a practical strategy is to restrict planning to regions of state-action space where the model is accurate: also known as a model precondition. Empirical real-world trajectory data is valuable for defining data-driven model preconditions regardless of the model form (analytical, simulator, learned, etc...). However, real-world data is often expensive and dangerous to collect. In order to achieve data efficiency, this paper presents an algorithm for actively selecting trajectories to learn a model precondition for an inaccurate pre-specified dynamics model. Our proposed techniques address challenges arising from the sequential nature of trajectories, and potential benefit of prioritizing task-relevant data. The experimental analysis shows how algorithmic properties affect performance in three planning scenarios: icy gridworld, simulated plant watering, and real-world plant watering. Results demonstrate an improvement of approximately 80% after only four real-world trajectories when using our proposed techniques.

Single-cell RNA sequencing (scRNA-seq) data are important for studying the biology of development or diseases at single-cell level. To better understand the properties of the data, to build controlled benchmark data for testing downstream methods, and to augment data when collecting sufficient real data is challenging, generative models have been proposed to computationally generate synthetic scRNA-seq data. However, the data generated with current models are not very realistic yet, especially when we need to generate data with controlled conditions. In the meantime, the Diffusion models have shown their power in generating data in computer vision at high fidelity, providing a new opportunity for scRNA-seq generation. In this study, we developed scDiffusion, a diffusion-based model to generate high-quality scRNA-seq data with controlled conditions. We designed multiple classifiers to guide the diffusion process simultaneously, enabling scDiffusion to generate data under multiple condition combinations. We also proposed a new control strategy called Gradient Interpolation. This strategy allows the model to generate continuous trajectories of cell development from a given cell state. Experiments showed that scDiffusion can generate single-cell gene expression data closely resembling real scRNA-seq data, surpassing state-of-the-art models in multiple metrics. Also, scDiffusion can conditionally produce data on specific cell types including rare cell types. Furthermore, we could use the multiple-condition generation of scDiffusion to generate cell type that was out of the training data. Leveraging the Gradient Interpolation strategy, we generated a continuous developmental trajectory of mouse embryonic cells. These experiments demonstrate that scDiffusion is a powerful tool for augmenting the real scRNA-seq data and can provide insights into cell fate research.