Bayesian Learning
False Discovery Rate Control via Bayesian Mirror Statistic
Molinari, Marco, Thoresen, Magne
Simultaneously performing variable selection and inference in high-dimensional models is an open challenge in statistics and machine learning. The increasing availability of vast amounts of variables requires the adoption of specific statistical procedures to accurately select the most important predictors in a high-dimensional space, while being able to control some form of selection error. In this work we adapt the Mirror Statistic approach to False Discovery Rate (FDR) control into a Bayesian modelling framework. The Mirror Statistic, developed in the classic frequentist statistical framework, is a flexible method to control FDR, which only requires mild model assumptions, but requires two sets of independent regression coefficient estimates, usually obtained after splitting the original dataset. Here we propose to rely on a Bayesian formulation of the model and use the posterior distributions of the coefficients of interest to build the Mirror Statistic and effectively control the FDR without the need to split the data. Moreover, the method is very flexible since it can be used with continuous and discrete outcomes and more complex predictors, such as with mixed models. We keep the approach scalable to high-dimensions by relying on Automatic Differentiation Variational Inference and fully continuous prior choices.
Approximation of differential entropy in Bayesian optimal experimental design
Chen, Chuntao, Helin, Tapio, Hyvönen, Nuutti, Suzuki, Yuya
Bayesian optimal experimental design provides a principled framework for selecting experimental settings that maximize obtained information. In this work, we focus on estimating the expected information gain in the setting where the differential entropy of the likelihood is either independent of the design or can be evaluated explicitly. This reduces the problem to maximum entropy estimation, alleviating several challenges inherent in expected information gain computation. Our study is motivated by large-scale inference problems, such as inverse problems, where the computational cost is dominated by expensive likelihood evaluations. We propose a computational approach in which the evidence density is approximated by a Monte Carlo or quasi-Monte Carlo surrogate, while the differential entropy is evaluated using standard methods without additional likelihood evaluations. We prove that this strategy achieves convergence rates that are comparable to, or better than, state-of-the-art methods for full expected information gain estimation, particularly when the cost of entropy evaluation is negligible. Moreover, our approach relies only on mild smoothness of the forward map and avoids stronger technical assumptions required in earlier work. We also present numerical experiments, which confirm our theoretical findings.
Bayesian Neural Networks for Functional ANOVA model
Park, Seokhun, Kim, Choeun, Lee, Jihu, Shin, Yunseop, Kong, Insung, Kim, Yongdai
With the increasing demand for interpretability in machine learning, functional ANOVA decomposition has gained renewed attention as a principled tool for breaking down high-dimensional function into low-dimensional components that reveal the contributions of different variable groups. Recently, Tensor Product Neural Network (TPNN) has been developed and applied as basis functions in the functional ANOVA model, referred to as ANOVA-TPNN. A disadvantage of ANOVA-TPNN, however, is that the components to be estimated must be specified in advance, which makes it difficult to incorporate higher-order TPNNs into the functional ANOVA model due to computational and memory constraints. In this work, we propose Bayesian-TPNN, a Bayesian inference procedure for the functional ANOVA model with TPNN basis functions, enabling the detection of higher-order components with reduced computational cost compared to ANOVA-TPNN. We develop an efficient MCMC algorithm and demonstrate that Bayesian-TPNN performs well by analyzing multiple benchmark datasets. Theoretically, we prove that the posterior of Bayesian-TPNN is consistent.
Approximately Unimodal Likelihood Models for Ordinal Regression
Ordinal regression (OR, also called ordinal classification) is classification of ordinal data, in which the underlying target variable is categorical and considered to have a natural ordinal relation for the underlying explanatory variable. A key to successful OR models is to find a data structure `natural ordinal relation' common to many ordinal data and reflect that structure into the design of those models. A recent OR study found that many real-world ordinal data show a tendency that the conditional probability distribution (CPD) of the target variable given a value of the explanatory variable will often be unimodal. Several previous studies thus developed unimodal likelihood models, in which a predicted CPD is guaranteed to become unimodal. However, it was also observed experimentally that many real-world ordinal data partly have values of the explanatory variable where the underlying CPD will be non-unimodal, and hence unimodal likelihood models may suffer from a bias for such a CPD. Therefore, motivated to mitigate such a bias, we propose approximately unimodal likelihood models, which can represent up to a unimodal CPD and a CPD that is close to be unimodal. We also verify experimentally that a proposed model can be effective for statistical modeling of ordinal data and OR tasks.
Structural Refinement of Bayesian Networks for Efficient Model Parameterisation
Drury, Kieran, Barons, Martine J., Smith, Jim Q.
Many Bayesian network modelling applications suffer from the issue of data scarcity. Hence the use of expert judgement often becomes necessary to determine the parameters of the conditional probability tables (CPTs) throughout the network. There are usually a prohibitively large number of these parameters to determine, even when complementing any available data with expert judgements. To address this challenge, a number of CPT approximation methods have been developed that reduce the quantity and complexity of parameters needing to be determined to fully parameterise a Bayesian network. This paper provides a review of a variety of structural refinement methods that can be used in practice to efficiently approximate a CPT within a Bayesian network. We not only introduce and discuss the intrinsic properties and requirements of each method, but we evaluate each method through a worked example on a Bayesian network model of cardiovascular risk assessment. We conclude with practical guidance to help Bayesian network practitioners choose an alternative approach when direct parameterisation of a CPT is infeasible.
A Framework for Selection of Machine Learning Algorithms Based on Performance Metrices and Akaike Information Criteria in Healthcare, Telecommunication, and Marketing Sector
The exponential growth of internet generated data has fueled advancements in artificial intelligence (AI), machine learning (ML), and deep learning (DL) for extracting actionable insights in marketing,telecom, and health sectors. This chapter explores ML applications across three domains namely healthcare, marketing, and telecommunications, with a primary focus on developing a framework for optimal ML algorithm selection. In healthcare, the framework addresses critical challenges such as cardiovascular disease prediction accounting for 28.1% of global deaths and fetal health classification into healthy or unhealthy states, utilizing three datasets. ML algorithms are categorized into eager, lazy, and hybrid learners, selected based on dataset attributes, performance metrics (accuracy, precision, recall), and Akaike Information Criterion (AIC) scores. For validation, eight datasets from the three sectors are employed in the experiments. The key contribution is a recommendation framework that identifies the best ML model according to input attributes, balancing performance evaluation and model complexity to enhance efficiency and accuracy in diverse real-world applications. This approach bridges gaps in automated model selection, offering practical implications for interdisciplinary ML deployment.
Partial Identification Approach to Counterfactual Fairness Assessment
Rho, Saeyoung, Zhang, Junzhe, Bareinboim, Elias
The wide adoption of AI decision-making systems in critical domains such as criminal justice, loan approval, and hiring processes has heightened concerns about algorithmic fairness. As we often only have access to the output of algorithms without insights into their internal mechanisms, it was natural to examine how decisions would alter when auxiliary sensitive attributes (such as race) change. This led the research community to come up with counterfactual fairness measures, but how to evaluate the measure from available data remains a challenging task. In many practical applications, the target counterfactual measure is not identifiable, i.e., it cannot be uniquely determined from the combination of quantitative data and qualitative knowledge. This paper addresses this challenge using partial identification, which derives informative bounds over counterfactual fairness measures from observational data. We introduce a Bayesian approach to bound unknown counterfactual fairness measures with high confidence. We demonstrate our algorithm on the COMPAS dataset, examining fairness in recidivism risk scores with respect to race, age, and sex. Our results reveal a positive (spurious) effect on the COMPAS score when changing race to African-American (from all others) and a negative (direct causal) effect when transitioning from young to old age.
Revealing the temporal dynamics of antibiotic anomalies in the infant gut microbiome with neural jump ODEs
Adamov, Anja, Chardonnet, Markus, Krach, Florian, Heiss, Jakob, Teichmann, Josef, Bokulich, Nicholas A.
Detecting anomalies in irregularly sampled multi-variate time-series is challenging, especially in data-scarce settings. Here we introduce an anomaly detection framework for irregularly sampled time-series that leverages neural jump ordinary differential equations (NJODEs). The method infers conditional mean and variance trajectories in a fully path dependent way and computes anomaly scores. On synthetic data containing jump, drift, diffusion, and noise anomalies, the framework accurately identifies diverse deviations. Applied to infant gut microbiome trajectories, it delineates the magnitude and persistence of antibiotic-induced disruptions: revealing prolonged anomalies after second antibiotic courses, extended duration treatments, and exposures during the second year of life. We further demonstrate the predictive capabilities of the inferred anomaly scores in accurately predicting antibiotic events and outperforming diversity-based baselines. Our approach accommodates unevenly spaced longitudinal observations, adjusts for static and dynamic covariates, and provides a foundation for inferring microbial anomalies induced by perturbations, offering a translational opportunity to optimize intervention regimens by minimizing microbial disruptions.
Enhancing Safety in Diabetic Retinopathy Detection: Uncertainty-Aware Deep Learning Models with Rejection Capabilities
Ramalingam, Madhushan, Riaz, Yaish, Rajamanoharan, Priyanthi, Dasanayaka, Piyumi
Diabetic retinopathy (DR) is a major cause of visual impairment, and effective treatment options depend heavily on timely and accurate diagnosis. Deep learning models have demonstrated great success identifying DR from retinal images. However, relying only on predictions made by models, without any indication of model confidence, creates uncertainty and poses significant risk in clinical settings. This paper investigates an alternative in uncertainty-aware deep learning models, including a rejection mechanism to reject low-confidence predictions, contextualized by deferred decision-making in clinical practice. The results show there is a trade-off between prediction coverage and coverage reliability. The Variational Bayesian model adopted a more conservative strategy when predicting DR, subsequently rejecting the uncertain predictions. The model is evaluated by means of important performance metrics such as Accuracy on accepted predictions, the proportion of accepted cases (coverage), the rejection-ratio, and Expected Calibration Error (ECE). The findings also demonstrate a clear trade-off between accuracy and caution, establishing that the use of uncertainty estimation and selective rejection improves the model's reliability in safety-critical diagnostic use cases.
Bayesian Risk-Sensitive Policy Optimization For MDPs With General Loss Functions
Wang, Xiaoshuang, Lin, Yifan, Zhou, Enlu
Motivated by many application problems, we consider Markov decision processes (MDPs) with a general loss function and unknown parameters. To mitigate the epistemic uncertainty associated with unknown parameters, we take a Bayesian approach to estimate the parameters from data and impose a coherent risk functional (with respect to the Bayesian posterior distribution) on the loss. Since this formulation usually does not satisfy the interchangeability principle, it does not admit Bellman equations and cannot be solved by approaches based on dynamic programming. Therefore, We propose a policy gradient optimization method, leveraging the dual representation of coherent risk measures and extending the envelope theorem to continuous cases. We then show the stationary analysis of the algorithm with a convergence rate of $\mathcal{O}(T^{-1/2}+r^{-1/2})$, where $T$ is the number of policy gradient iterations and $r$ is the sample size of the gradient estimator. We further extend our algorithm to an episodic setting, and establish the global convergence of the extended algorithm and provide bounds on the number of iterations needed to achieve an error bound $\mathcal{O}(ε)$ in each episode.