Background: Adaptive trials usually require simulations to determine values for design parameters, demonstrate error rates, and establish the sample size. We designed a Bayesian adaptive trial comparing ventilation strategies for patients with acute hypoxemic respiratory failure using simulations. The complexity of the analysis would usually require computationally expensive Markov Chain Monte Carlo methods but this barrier to simulation was overcome using the Integrated Nested Laplace Approximations (INLA) algorithm to provide fast, approximate Bayesian inference.
Methods: We simulated two-arm Bayesian adaptive trials with equal randomization that stratified participants into two disease severity states. The analysis used a proportional odds model, fit using INLA. Trials were stopped based on pre-specified posterior probability thresholds for superiority or futility, separately for each state. We calculated the type I error and power across 64 scenarios that varied the probability thresholds and the initial minimum sample size before commencing adaptive analyses. Two designs that maintained a type I error below 5%, a power above 80%, and a feasible mean sample size were evaluated further to determine the optimal design.
Results: Power generally increased as the initial sample size and the futility threshold increased. The chosen design had an initial recruitment of 500 and a superiority threshold of 0.9925, and futility threshold of 0.95. It maintained high power and was likely to reach a conclusion before exceeding a feasible sample size.
Conclusions: We designed a Bayesian adaptive trial to evaluate novel strategies for ventilation using the INLA algorithm to efficiently evaluate a wide range of designs through simulation.
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http://dx.doi.org/10.1016/j.cct.2024.107560 | DOI Listing |
Sci Rep
January 2025
Departemant of Physics and Energy Engineering, Amirkabir University of Technology, Tehran, Iran.
With careful design and integration, microring resonators can serve as a promising foundation for developing compact and scalable sources of non-classical light for quantum information processing. However, the current design flow is hindered by computational challenges and a complex, high-dimensional parameter space with interdependent variables. In this work, we present a knowledge-integrated machine learning framework based on Bayesian Optimization for designing squeezed light sources using microring resonators.
View Article and Find Full Text PDFNat Commun
January 2025
Computational Oncology, Memorial Sloan Kettering Cancer Center, New York, NY, USA.
Large-scale combination drug screens are generally considered intractable due to the immense number of possible combinations. Existing approaches use ad hoc fixed experimental designs then train machine learning models to impute unobserved combinations. Here we propose BATCHIE, an orthogonal approach that conducts experiments dynamically in batches.
View Article and Find Full Text PDFPLoS One
January 2025
South African DSI-NRF Centre of Excellence in Epidemiological Modelling and Analysis (SACEMA), Stellenbosch University, Stellenbosch, South Africa.
Background: Monitoring trends in multiple infections with SARS-CoV-2, following several pandemic waves, provides insight into the biological characteristics of new variants, but also necessitates methods to understand the risk of multiple reinfections.
Objectives: We generalised a catalytic model designed to detect increases in the risk of SARS-CoV-2 reinfection, to assess the population-level risk of multiple reinfections.
Methods: The catalytic model assumes the risk of reinfection is proportional to observed infections and uses a Bayesian approach to fit model parameters to the number of nth infections among individuals that occur at least 90 days after a previous infection.
Biometrics
October 2024
Department of Statistics, North Carolina State University, Raleigh, NC 27695, United States.
Accurate delineation of functional brain regions adjacent to tumors is imperative for planning neurosurgery that preserves critical functions. Functional magnetic resonance imaging (fMRI) plays an increasingly pivotal role in presurgical counseling and planning. In the analysis of presurgical fMRI data, the impact of false negatives on patients surpasses that of false positives because failure to identify functional regions and unintentionally resecting critical tissues can result in severe harm to patients.
View Article and Find Full Text PDFConscious Cogn
December 2024
Department of Business and Marketing, Faculty of Commerce, Kyushu Sangyo University, 3-1 Matsukadai 2-Chome, Higashi-ku, Fukuoka 813-8503, Japan. Electronic address:
This online experiment aimed to replicate Sugano's (2021) findings on how exposure to delayed auditory feedback affects feeling of control (agency). Participants first adapted by repeatedly reproducing a sequence of seven, eight or nine tones on a single trial basis while receiving either immediate (10 ms) or delayed (110 ms) auditory feedback on their keypresses. This exposure aimed to recalibrate their timing perception.
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