Bayesian Learning
Orientability of Causal Relations in Time Series using Summary Causal Graphs and Faithful Distributions
Loranchet, Timothée, Assaad, Charles K.
Understanding causal relations between temporal variables is a central challenge in time series analysis, particularly when the full causal structure is unknown. Even when the full causal structure cannot be fully specified, experts often succeed in providing a high-level abstraction of the causal graph, known as a summary causal graph, which captures the main causal relations between different time series while abstracting away micro-level details. In this work, we present conditions that guarantee the orientability of micro-level edges between temporal variables given the background knowledge encoded in a summary causal graph and assuming having access to a faithful and causally sufficient distribution with respect to the true unknown graph. Our results provide theoretical guarantees for edge orientation at the micro-level, even in the presence of cycles or bidirected edges at the macro-level. These findings offer practical guidance for leveraging SCGs to inform causal discovery in complex temporal systems and highlight the value of incorporating expert knowledge to improve causal inference from observational time series data.
Priors Matter: Addressing Misspecification in Bayesian Deep Q-Learning
van der Vaart, Pascal R., Yorke-Smith, Neil, Spaan, Matthijs T. J.
Uncertainty quantification in reinforcement learning can greatly improve exploration and robustness. Approximate Bayesian approaches have recently been popularized to quantify uncertainty in model-free algorithms. However, so far the focus has been on improving the accuracy of the posterior approximation, instead of studying the accuracy of the prior and likelihood assumptions underlying the posterior. In this work, we demonstrate that there is a cold posterior effect in Bayesian deep Q-learning, where contrary to theory, performance increases when reducing the temperature of the posterior. To identify and overcome likely causes, we challenge common assumptions made on the likelihood and priors in Bayesian model-free algorithms. We empirically study prior distributions and show through statistical tests that the common Gaussian likelihood assumption is frequently violated. We argue that developing more suitable likelihoods and priors should be a key focus in future Bayesian reinforcement learning research and we offer simple, implementable solutions for better priors in deep Q-learning that lead to more performant Bayesian algorithms.
Controllable 3D Molecular Generation for Structure-Based Drug Design Through Bayesian Flow Networks and Gradient Integration
Choi, Seungyeon, Kim, Hwanhee, Park, Chihyun, Lee, Dahyeon, Lee, Seungyong, Kim, Yoonju, Park, Hyoungjoon, Kwon, Sein, Jo, Youngwan, Park, Sanghyun
Recent advances in Structure-based Drug Design (SBDD) have leveraged generative models for 3D molecular generation, predominantly evaluating model performance by binding affinity to target proteins. However, practical drug discovery necessitates high binding affinity along with synthetic feasibility and selectivity, critical properties that were largely neglected in previous evaluations. To address this gap, we identify fundamental limitations of conventional diffusion-based generative models in effectively guiding molecule generation toward these diverse pharmacological properties. We propose CByG, a novel framework extending Bayesian Flow Network into a gradient-based conditional generative model that robustly integrates property-specific guidance. Additionally, we introduce a comprehensive evaluation scheme incorporating practical benchmarks for binding affinity, synthetic feasibility, and selectivity, overcoming the limitations of conventional evaluation methods. Extensive experiments demonstrate that our proposed CByG framework significantly outperforms baseline models across multiple essential evaluation criteria, highlighting its effectiveness and practicality for real-world drug discovery applications.
Normalized Maximum Likelihood Code-Length on Riemannian Manifold Data Spaces
Fukuzawa, Kota, Suzuki, Atsushi, Yamanishi, Kenji
--In recent years, with the large-scale expansion of graph data, there has been an increased focus on Riemannian manifold data spaces other than Euclidean space. In particular, the development of hyperbolic spaces has been remarkable, and they have high expressive power for graph data with hierarchical structures. Normalized Maximum Likelihood (NML) is employed in regret minimization and model selection. However, existing formulations of NML have been developed primarily in Euclidean spaces and are inherently dependent on the choice of coordinate systems, making it non-trivial to extend NML to Riemannian manifolds. In this study, we define a new NML that reflects the geometric structure of Riemannian manifolds, called the Riemannian manifold NML (Rm-NML). This Rm-NML is invariant under coordinate transformations and coincides with the conventional NML under the natural parameterization in Euclidean space. We extend existing computational techniques for NML to the setting of Riemannian manifolds. Furthermore, we derive a method to simplify the computation of Rm-NML on Riemannian symmetric spaces, which encompass data spaces of growing interest such as hyperbolic spaces. T o illustrate the practical application of our proposed method, we explicitly computed the Rm-NML for normal distributions on hyperbolic spaces. With the recent increase in the scale of graph data, Riemannian manifold data spaces other than Euclidian spaces are attracting attention as latent spaces suitable for graph embedding [1, 2]. For example, hyperbolic spaces have been demonstrated to possess high expressive power for graph data with hierarchical structures [3]. Spherical spaces are particularly effective in representing graph data with cyclic structures [4]. Notably, research on hyperbolic spaces has been particularly remarkable[3]. Specifically, in the field of representation learning, methods that embed hierarchical structures into hyperbolic space have successfully represented such relationships using significantly lower-dimensional space compared to conventional methods based on Euclidean space, while preserving the essential relational information[2].
Towards Trustworthy Amortized Bayesian Model Comparison
Kucharský, Šimon, Mishra, Aayush, Habermann, Daniel, Radev, Stefan T., Bürkner, Paul-Christian
Amortized Bayesian model comparison (BMC) enables fast probabilistic ranking of models via simulation-based training of neural surrogates. However, the reliability of neural surrogates deteriorates when simulation models are misspecified - the very case where model comparison is most needed. Thus, we supplement simulation-based training with a self-consistency (SC) loss on unlabeled real data to improve BMC estimates under empirical distribution shifts. Using a numerical experiment and two case studies with real data, we compare amortized evidence estimates with and without SC against analytic or bridge sampling benchmarks. SC improves calibration under model misspecification when having access to analytic likelihoods. However, it offers limited gains with neural surrogate likelihoods, making it most practical for trustworthy BMC when likelihoods are exact.
Transfer Learning for Classification under Decision Rule Drift with Application to Optimal Individualized Treatment Rule Estimation
In this paper, we extend the transfer learning classification framework from regression function-based methods to decision rules. We propose a novel methodology for modeling posterior drift through Bayes decision rules. By exploiting the geometric transformation of the Bayes decision boundary, our method reformulates the problem as a low-dimensional empirical risk minimization problem. Under mild regularity conditions, we establish the consistency of our estimators and derive the risk bounds. Moreover, we illustrate the broad applicability of our method by adapting it to the estimation of optimal individualized treatment rules. Extensive simulation studies and analyses of real-world data further demonstrate both superior performance and robustness of our approach.
MM-HSD: Multi-Modal Hate Speech Detection in Videos
Céspedes-Sarrias, Berta, Collado-Capell, Carlos, Rodenas-Ruiz, Pablo, Hrynenko, Olena, Cavallaro, Andrea
While hate speech detection (HSD) has been extensively studied in text, existing multi-modal approaches remain limited, particularly in videos. As modalities are not always individually informative, simple fusion methods fail to fully capture inter-modal dependencies. Moreover, previous work often omits relevant modalities such as on-screen text and audio, which may contain subtle hateful content and thus provide essential cues, both individually and in combination with others. In this paper, we present MM-HSD, a multi-modal model for HSD in videos that integrates video frames, audio, and text derived from speech transcripts and from frames (i.e.~on-screen text) together with features extracted by Cross-Modal Attention (CMA). We are the first to use CMA as an early feature extractor for HSD in videos, to systematically compare query/key configurations, and to evaluate the interactions between different modalities in the CMA block. Our approach leads to improved performance when on-screen text is used as a query and the rest of the modalities serve as a key. Experiments on the HateMM dataset show that MM-HSD outperforms state-of-the-art methods on M-F1 score (0.874), using concatenation of transcript, audio, video, on-screen text, and CMA for feature extraction on raw embeddings of the modalities. The code is available at https://github.com/idiap/mm-hsd
Photonic restricted Boltzmann machine for content generation tasks
Luo, Li, Fang, Yisheng, Zhang, Wanyi, Ruan, Zhichao
The restricted Boltzmann machine (RBM) is a neural network based on the Ising model, well known for its ability to learn probability distributions and stochastically generate new content. However, the high computational cost of Gibbs sampling in content generation tasks imposes significant bottlenecks on electronic implementations. Here, we propose a photonic restricted Boltzmann machine (PRBM) that leverages photonic computing to accelerate Gibbs sampling, enabling efficient content generation. By introducing an efficient encoding method, the PRBM eliminates the need for computationally intensive matrix decomposition and reduces the computational complexity of Gibbs sampling from $O(N)$ to $O(1)$. Moreover, its non-Von Neumann photonic computing architecture circumvents the memory storage of interaction matrices, providing substantial advantages for large-scale RBMs. We experimentally validate the photonic-accelerated Gibbs sampling by simulating a two-dimensional Ising model, where the observed phase transition temperature closely matches the theoretical predictions. Beyond physics-inspired tasks, the PRBM demonstrates robust capabilities in generating and restoring diverse content, including images and temporal sequences, even in the presence of noise and aberrations. The scalability and reduced training cost of the PRBM framework underscore its potential as a promising pathway for advancing photonic computing in generative artificial intelligence.
Latent Variable Modeling for Robust Causal Effect Estimation
Morimura, Tetsuro, Oka, Tatsushi, Suzuki, Yugo, Moriwaki, Daisuke
Latent variable models provide a powerful framework for incorporating and inferring unobserved factors in observational data. In causal inference, they help account for hidden factors influencing treatment or outcome, thereby addressing challenges posed by missing or unmeasured covariates. This paper proposes a new framework that integrates latent variable modeling into the double machine learning (DML) paradigm to enable robust causal effect estimation in the presence of such hidden factors. We consider two scenarios: one where a latent variable affects only the outcome, and another where it may influence both treatment and outcome. To ensure tractability, we incorporate latent variables only in the second stage of DML, separating representation learning from latent inference. We demonstrate the robustness and effectiveness of our method through extensive experiments on both synthetic and real-world datasets.
A Unified Theory of Language
A unified theory of language combines a Bayesian cognitive linguistic model of language processing, with the proposal that language evolved by sexual selection for the display of intelligence. The theory accounts for the major facts of language, including its speed and expressivity, and data on language diversity, pragmatics, syntax and semantics. The computational element of the theory is based on Construction Grammars. These give an account of the syntax and semantics of the worlds languages, using constructions and unification. Two novel elements are added to construction grammars: an account of language pragmatics, and an account of fast, precise language learning. Constructions are represented in the mind as graph like feature structures. People use slow general inference to understand the first few examples they hear of any construction. After that it is learned as a feature structure, and is rapidly applied by unification. All aspects of language (phonology, syntax, semantics, and pragmatics) are seamlessly computed by fast unification; there is no boundary between semantics and pragmatics. This accounts for the major puzzles of pragmatics, and for detailed pragmatic phenomena. Unification is Bayesian maximum likelihood pattern matching. This gives evolutionary continuity between language processing in the human brain, and Bayesian cognition in animal brains. Language is the basis of our mind reading abilities, our cooperation, self esteem and emotions; the foundations of human culture and society.