arXiv subjects

Jiayue Wan

Publications and source records attributed to Jiayue Wan.

3 recordsLinked to original sources

arXiv2024

Bayesian Optimization of Function Networks with Partial Evaluations

Bayesian optimization is a powerful framework for optimizing functions that are expensive or time-consuming to evaluate. Recent work has considered Bayesian optimization of function networks (BOFN), where the objective function is given by a network of functions, each taking as input the output of previous nodes in the network as well as additional parameters. Leveraging this network structure has been shown to yield significant performance improvements. Existing BOFN algorithms for general-purpose networks evaluate the full network at each iteration. However, many real-world applications allow for evaluating nodes individually. To exploit this, we propose a novel knowledge gradient acquisition function that chooses which node and corresponding inputs to evaluate in a cost-aware manner, thereby reducing query costs by evaluating only on a part of the network at each step. We provide an efficient approach to optimizing our acquisition function and show that it outperforms existing BOFN methods and other benchmarks across several synthetic and real-world problems. Our acquisition function is the first to enable cost-aware optimization of a broad class of function networks.

stat.ML↗

arXiv2021

Correlation Improves Group Testing: Modeling Concentration-Dependent Test Errors

Population-wide screening is a powerful tool for controlling infectious diseases. Group testing enables such screening despite limited resources. Viral concentration of pooled samples are often positively correlated, either because prevalence and sample collection are influenced by location, or through intentional enhancement via pooling samples according to risk/household. Such correlation is known to improve efficiency under fixed test sensitivity. However, in reality, a test's sensitivity depends on the concentration of the analyte (e.g., viral RNA), as in the so-called dilution effect, where sensitivity decreases for larger pools. We show that concentration-dependent test error alters correlation's effect under the most widely-used group testing procedure, the two-stage Dorfman procedure. We prove that when test sensitivity increases with concentration, pooling correlated samples together (correlated pooling) achieves asymptotically higher sensitivity than independently pooling the samples (naive pooling). In contrast, in the concentration-independent case, correlation does not affect sensitivity. Moreover, with concentration-dependent errors, correlation can degrade test efficiency compared to naive pooling whereas under concentration-independent errors, correlation always improves efficiency. We propose an alternative measure of test resource usage, the number of positives found per test consumed, which we argue is better aligned with infection control, and show that correlated pooling outperforms naive pooling on this measure. In simulation, we show that the effect of correlation under realistic concentration-dependent test error meaningfully differs from correlation's effect assuming fixed sensitivity. Our findings underscore the importance for policy-makers of using models that incorporate naturally-occurring correlation and of considering ways of strengthening this correlation.

stat.AP↗

arXiv2020

Group Testing Enables Asymptomatic Screening for COVID-19 Mitigation: Feasibility and Optimal Pool Size Selection with Dilution Effects

Repeated asymptomatic screening for SARS-CoV-2 promises to control spread of the virus but would require too many resources to implement at scale. Group testing is promising for screening more people with fewer test resources: multiple samples tested together in one pool can be excluded with one negative test result. Existing approaches to group testing design for SARS-CoV-2 asymptomatic screening, however, do not consider dilution effects: that false negatives become more common with larger pools. As a consequence, they may recommend pool sizes that are too large or misestimate the benefits of screening. Modeling dilution effects, we derive closed-form expressions for the expected number of tests and false negative/positives per person screened under two popular group testing methods: the linear and square array methods. We find that test error correlation induced by a common viral load across an individual's samples results in many fewer false negatives than would be expected from less realistic but more widely assumed independent errors. This insight also suggests that false positives can be controlled through repeated tests without significantly increasing false negatives. Using these closed-form expressions to trace a Pareto frontier over error rates and tests, we design testing protocols for repeated asymptomatic screening of a large population. We minimize disease prevalence by optimizing a time-varying pool sizes and screening frequency constrained by daily test capacity and a false positive limit. This provides a testing protocol practitioners can use for mitigating COVID-19. In a case study, we demonstrate the effectiveness of this methodology in controlling spread.

q-bio.PE↗