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Thomas A. Trikalinos

Publications and source records attributed to Thomas A. Trikalinos.

5 recordsLinked to original sources

Differentially Private Modeling of Disease Transmission within Human Contact Networks

Epidemiologic studies of infectious diseases often rely on models of contact networks to capture the complex interactions that govern disease spread, and ongoing projects aim to vastly increase the scale at which such data can be collected. However, contact networks may include sensitive information, such as sexual relationships or drug use behavior. Protecting individual privacy while maintaining the scientific usefulness of the data is crucial. We propose a privacy-preserving pipeline for disease spread simulation studies based on a sensitive network that integrates differential privacy (DP) with statistical network models such as stochastic block models (SBMs) and exponential random graph models (ERGMs). Our pipeline comprises three steps: (1) compute network summary statistics using \emph{node-level} DP (which corresponds to protecting individuals' contributions); (2) fit a statistical model, like an ERGM, using these summaries, which allows generating synthetic networks reflecting the structure of the original network; and (3) simulate disease spread on the synthetic networks using an agent-based model. We evaluate the effectiveness of our approach using a simple Susceptible-Infected-Susceptible (SIS) disease model under multiple configurations. We compare both numerical results, such as simulated disease incidence and prevalence, as well as qualitative conclusions such as intervention effect size, on networks generated with and without differential privacy constraints. Our experiments are based on egocentric sexual network data from the ARTNet study (a survey about HIV-related behaviors). Our results show that the noise added for privacy is small relative to other sources of error (sampling and model misspecification). This suggests that, in principle, curators of such sensitive data can provide valuable epidemiologic insights while protecting privacy.

cs.CR↗

nhppp: Simulating Nonhomogeneous Poisson Point Processes in R

We introduce the `nhppp' package for simulating events from one-dimensional non-homogeneous Poisson point processes (NHPPPs) in R fast and with a small memory footprint. We developed it to facilitate the sampling of event times in discrete event and statistical simulations. The package's functions are based on three algorithms that provably sample from a target NHPPP: the time-transformation of a homogeneous Poisson process (of intensity one) via the inverse of the integrated intensity function; the generation of a Poisson number of order statistics from a fixed density function; and the thinning of a majorizing NHPPP via an acceptance-rejection scheme. We present a study of numerical accuracy and time performance of the algorithms. We illustrate use with simple reproducible examples.

stat.CO↗

Appraising the Potential Uses and Harms of LLMs for Medical Systematic Reviews

Medical systematic reviews play a vital role in healthcare decision making and policy. However, their production is time-consuming, limiting the availability of high-quality and up-to-date evidence summaries. Recent advancements in large language models (LLMs) offer the potential to automatically generate literature reviews on demand, addressing this issue. However, LLMs sometimes generate inaccurate (and potentially misleading) texts by hallucination or omission. In healthcare, this can make LLMs unusable at best and dangerous at worst. We conducted 16 interviews with international systematic review experts to characterize the perceived utility and risks of LLMs in the specific context of medical evidence reviews. Experts indicated that LLMs can assist in the writing process by drafting summaries, generating templates, distilling information, and crosschecking information. They also raised concerns regarding confidently composed but inaccurate LLM outputs and other potential downstream harms, including decreased accountability and proliferation of low-quality reviews. Informed by this qualitative analysis, we identify criteria for rigorous evaluation of biomedical LLMs aligned with domain expert views.

cs.CL↗

Active learning for efficiently training emulators of computationally expensive mathematical models

An emulator is a fast-to-evaluate statistical approximation of a detailed mathematical model (simulator). When used in lieu of simulators, emulators can expedite tasks that require many repeated evaluations, such as sensitivity analyses, policy optimization, model calibration, and value-of-information analyses. Emulators are developed using the output of simulators at specific input values (design points). Developing an emulator that closely approximates the simulator can require many design points, which becomes computationally expensive. We describe a self-terminating active learning algorithm to efficiently develop emulators tailored to a specific emulation task, and compare it with algorithms that optimize geometric criteria (random latin hypercube sampling and maximum projection designs) and other active learning algorithms (treed Gaussian Processes that optimize typical active learning criteria). We compared the algorithms' root mean square error (RMSE) and maximum absolute deviation from the simulator (MAX) for seven benchmark functions and in a prostate cancer screening model. In the empirical analyses, in simulators with greatly-varying smoothness over the input domain, active learning algorithms resulted in emulators with smaller RMSE and MAX for the same number of design points. In all other cases, all algorithms performed comparably. The proposed algorithm attained satisfactory performance in all analyses, had smaller variability than the treed Gaussian Processes (it is deterministic), and, on average, had similar or better performance as the treed Gaussian Processes in 6 out of 7 benchmark functions and in the prostate cancer model.

stat.ME↗

Constructions for a bivariate beta distribution

The beta distribution is a basic distribution serving several purposes. It is used to model data, and also, as a more flexible version of the uniform distribution, it serves as a prior distribution for a binomial probability. The bivariate beta distribution plays a similar role for two probabilities that have a bivariate binomial distribution. We provide a new multivariate distribution with beta marginal distributions, positive probability over the unit square, and correlations over the full range. We discuss its extension to three or more dimensions.

stat.ME↗