Willa Potosnak

Chirag Nagpal, Willa Potosnak, Artur Dubrawski

Applications of machine learning in healthcare often require working with time-to-event prediction tasks including prognostication of an adverse event, re-hospitalization or death. Such outcomes are typically subject to censoring due to loss of follow up. Standard machine learning methods cannot be applied in a straightforward manner to datasets with censored outcomes. In this paper, we present auton-survival, an open-source repository of tools to streamline working with censored time-to-event or survival data. auton-survival includes tools for survival regression, adjustment in the presence of domain shift, counterfactual estimation, phenotyping for risk stratification, evaluation, as well as estimation of treatment effects. Through real world case studies employing a large subset of the SEER oncology incidence data, we demonstrate the ability of auton-survival to rapidly support data scientists in answering complex health and epidemiological questions.

Michał Wiliński, Mononito Goswami, Willa Potosnak et al. · cmu

Time series foundation models (TSFMs) promise to be powerful tools for a wide range of applications. However, their internal representations and learned concepts are still not well understood. In this study, we investigate the structure and redundancy of representations across various TSFMs, examining the self-similarity of model layers within and across different model sizes. This analysis reveals block-like redundancy in the representations, which can be utilized for informed pruning to improve inference speed and efficiency. Additionally, we explore the concepts learned by these models - such as periodicity and trends - and how these can be manipulated through latent space steering to influence model behavior. Our experiments show that steering interventions can introduce new features, e.g., adding periodicity or trends to signals that initially lacked them. These findings underscore the value of representational analysis for optimizing models and demonstrate how conceptual steering offers new possibilities for more controlled and efficient time series analysis with TSFMs.

Willa Potosnak, Cristian Challu, Mononito Goswami et al. · cmu

Recently, time series foundation models have shown promising zero-shot forecasting performance on time series from a wide range of domains. However, it remains unclear whether their success stems from a true understanding of temporal dynamics or simply from memorizing the training data. While implicit reasoning in language models has been studied, similar evaluations for time series models have been largely unexplored. This work takes an initial step toward assessing the reasoning abilities of deep time series forecasting models. We find that certain linear, MLP-based, and patch-based Transformer models generalize effectively in systematically orchestrated out-of-distribution scenarios, suggesting underexplored reasoning capabilities beyond simple pattern memorization.

Nina Żukowska, Mononito Goswami, Michał Wiliński et al. · cmu

Time series foundation models have shown impressive performance on a variety of tasks, across a wide range of domains, even in zero-shot settings. However, most of these models are designed to handle short univariate time series as an input. This limits their practical use, especially in domains such as healthcare with copious amounts of long and multivariate data with strong temporal and intra-variate dependencies. Our study bridges this gap by cataloging and systematically comparing various context expansion techniques from both language and time series domains, and introducing a novel compressive memory mechanism to allow encoder-only TSFMs to effectively model intra-variate dependencies. We demonstrate the benefits of our approach by imbuing MOMENT, a recent family of multi-task time series foundation models, with the multivariate context.

Willa Potosnak, Cristian Challu, Mononito Goswami et al. · cmu

Large pre-trained time series foundation models (TSFMs) have demonstrated promising zero-shot performance across a wide range of domains. However, a question remains: Do TSFMs succeed by memorizing patterns in training data, or do they possess the ability to reason about such patterns? While reasoning is a topic of great interest in the study of Large Language Models (LLMs), it is undefined and largely unexplored in the context of TSFMs. In this work, inspired by language modeling literature, we formally define compositional reasoning in forecasting and distinguish it from in-distribution generalization. We evaluate the reasoning and generalization capabilities of 16 popular deep learning forecasting models on multiple synthetic and real-world datasets. Additionally, through controlled studies, we systematically examine which design choices in 7 popular open-source TSFMs contribute to improved reasoning capabilities. Our study yields key insights into the impact of TSFM architecture design on compositional reasoning and generalization. We find that patch-based Transformers have the best reasoning performance, closely followed by residualized MLP-based architectures, which are 97\% less computationally complex in terms of FLOPs and 86\% smaller in terms of the number of trainable parameters. Interestingly, in some zero-shot out-of-distribution scenarios, these models can outperform moving average and exponential smoothing statistical baselines trained on in-distribution data. Only a few design choices, such as the tokenization method, had a significant (negative) impact on Transformer model performance.

Willa Potosnak, Cristian Challu, Kin G. Olivares et al.

Forecasting healthcare time series data is vital for early detection of adverse outcomes and patient monitoring. However, it can be challenging in practice due to variable medication administration and unique pharmacokinetic (PK) properties of each patient. To address these challenges, we propose a novel hybrid global-local architecture and a PK encoder that informs deep learning models of patient-specific treatment effects. We showcase the efficacy of our approach in achieving significant accuracy gains in a blood glucose forecasting task using both realistically simulated and real-world data. Our PK encoder surpasses baselines by up to 16.4% on simulated data and 4.9% on real-world data for individual patients during critical events of severely high and low glucose levels. Furthermore, our proposed hybrid global-local architecture outperforms patient-specific PK models by 15.8%, on average.

Salva Rühling Cachay, Emma Erickson, Arthur Fender C. Bucker et al.

Deep learning-based models have recently outperformed state-of-the-art seasonal forecasting models, such as for predicting El Niño-Southern Oscillation (ENSO). However, current deep learning models are based on convolutional neural networks which are difficult to interpret and can fail to model large-scale atmospheric patterns. In comparison, graph neural networks (GNNs) are capable of modeling large-scale spatial dependencies and are more interpretable due to the explicit modeling of information flow through edge connections. We propose the first application of graph neural networks to seasonal forecasting. We design a novel graph connectivity learning module that enables our GNN model to learn large-scale spatial interactions jointly with the actual ENSO forecasting task. Our model, \graphino, outperforms state-of-the-art deep learning-based models for forecasts up to six months ahead. Additionally, we show that our model is more interpretable as it learns sensible connectivity structures that correlate with the ENSO anomaly pattern.

Salva Rühling Cachay, Emma Erickson, Arthur Fender C. Bucker et al.

Deep learning-based models have recently outperformed state-of-the-art seasonal forecasting models, such as for predicting El Niño-Southern Oscillation (ENSO). However, current deep learning models are based on convolutional neural networks which are difficult to interpret and can fail to model large-scale atmospheric patterns called teleconnections. Hence, we propose the application of spatiotemporal Graph Neural Networks (GNN) to forecast ENSO at long lead times, finer granularity and improved predictive skill than current state-of-the-art methods. The explicit modeling of information flow via edges may also allow for more interpretable forecasts. Preliminary results are promising and outperform state-of-the art systems for projections 1 and 3 months ahead.