Goto

Collaborating Authors

 Statistical Learning


HR-VILAGE-3K3M: A Human Respiratory Viral Immunization Longitudinal Gene Expression Dataset for Systems Immunity

arXiv.org Artificial Intelligence

Respiratory viral infections pose a global health burden, yet the cellular immune responses driving protection or pathology remain unclear. Natural infection cohorts often lack pre-exposure baseline data and structured temporal sampling. In contrast, inoculation and vaccination trials generate insightful longitudinal transcriptomic data. However, the scattering of these datasets across platforms, along with inconsistent metadata and preprocessing procedure, hinders AI-driven discovery. To address these challenges, we developed the Human Respiratory Viral Immunization LongitudinAl Gene Expression (HR-VILAGE-3K3M) repository: an AI-ready, rigorously curated dataset that integrates 14,136 RNA-seq profiles from 3,178 subjects across 66 studies encompassing over 2.56 million cells. Spanning vaccination, inoculation, and mixed exposures, the dataset includes microarray, bulk RNA-seq, and single-cell RNA-seq from whole blood, PBMCs, and nasal swabs, sourced from GEO, ImmPort, and ArrayExpress. We harmonized subject-level metadata, standardized outcome measures, applied unified preprocessing pipelines with rigorous quality control, and aligned all data to official gene symbols. To demonstrate the utility of HR-VILAGE-3K3M, we performed predictive modeling of vaccine responders and evaluated batch-effect correction methods. Beyond these initial demonstrations, it supports diverse systems immunology applications and benchmarking of feature selection and transfer learning algorithms. Its scale and heterogeneity also make it ideal for pretraining foundation models of the human immune response and for advancing multimodal learning frameworks. As the largest longitudinal transcriptomic resource for human respiratory viral immunization, it provides an accessible platform for reproducible AI-driven research, accelerating systems immunology and vaccine development against emerging viral threats.


A Hybrid Quantum Classical Pipeline for X Ray Based Fracture Diagnosis

arXiv.org Artificial Intelligence

-- Bone fractures are a leading cause of morbidity and disability worldwide, imposing significant clinical and economic burdens on healthcare systems. Traditional X - ray inter pretation is time - consuming and error - prone, while existing machine learning and deep learning solutions often demand extensive feature engineering, large, annotated datasets, and high computational resources. To address these challenges, a distributed hyb rid quantum - classical pipeline is proposed that first applies Principal Component Analysis (PCA) for dimensionality reduction and then leverages a 4 - qubit quantum amplitude - encoding circuit for feature enrichment. By fusing eight PCA - derived features with eight quantum - enhanced features into a 16 - dimensional vector and then classifying with different machine learning models achieving 99% accuracy using a public multi - region X - ray dataset on par with state - of - the - art transfer learning models -- while reducing feature extraction time by 82%. I. INTRODUCTION one fractures present a major challenge in orthopedic and trauma care, where accurate and timely diagnosis is critical for effective trea tment and patient recovery. These may result from trauma, accidents, or conditions like osteoporosis, and if fractures are misdiagnosed or undiagnosed, patients may suffer complications such as improper heali ng or long - term disability [1]. Globally, the fractures contribute substantially to morbidity, disability, and healthcare costs [1 ], [ 2]. X - ray imaging remains the most common diagnostic tool due to its accessibility and non - invasive nature.


Space evaluation at the starting point of soccer transitions

arXiv.org Artificial Intelligence

Soccer is a sport played on a pitch where effective use of space is crucial. Decision-making during transitions, when possession switches between teams, has been increasingly important, but research on space evaluation in these moments has been limited. Recent space evaluation methods such as OBSO (Off-Ball Scoring Opportunity) use scoring probability, so it is not well-suited for assessing areas far from the goal, where transitions typically occur. In this paper, we propose OBPV (Off-Ball Positioning Value) to evaluate space across the pitch, including the starting points of transitions. OBPV extends OBSO by introducing the field value model, which evaluates the entire pitch, and by employing the transition kernel model, which reflects positional specificity through kernel density estimation of pass distributions. Experiments using La Liga 2023/24 season tracking and event data show that OBPV highlights effective space utilization during counter-attacks and reveals team-specific characteristics in how the teams utilize space after positive and negative transitions.


Scalable Bayesian Monte Carlo: fast uncertainty estimation beyond deep ensembles

arXiv.org Machine Learning

This work introduces a new method called scalable Bayesian Monte Carlo (SBMC). The model interpolates between a point estimator and the posterior, and the algorithm is a parallel implementation of a consistent (asymptotically unbiased) Bayesian deep learning algorithm: sequential Monte Carlo (SMC) or Markov chain Monte Carlo (MCMC). The method is motivated theoretically, and its utility is demonstrated on practical examples: MNIST, CIFAR, IMDb. A systematic numerical study reveals that parallel implementations of SMC and MCMC are comparable to serial implementations in terms of performance and total cost, and they achieve accuracy at or beyond the state-of-the-art (SOTA) methods like deep ensembles at convergence, along with substantially improved uncertainty quantification (UQ)--in particular, epistemic UQ. But even parallel implementations are expensive, with an irreducible time barrier much larger than the cost of the MAP estimator. Compressing time further leads to rapid degradation of accuracy, whereas UQ remains valuable. By anchoring to a point estimator we can recover accuracy, while retaining valuable UQ, ultimately delivering strong performance across metrics for a cost comparable to the SOTA.


Rethink the Role of Deep Learning towards Large-scale Quantum Systems

arXiv.org Artificial Intelligence

Characterizing the ground state properties of quantum systems is fundamental to capturing their behavior but computationally challenging. Recent advances in AI have introduced novel approaches, with diverse machine learning (ML) and deep learning (DL) models proposed for this purpose. However, the necessity and specific role of DL models in these tasks remain unclear, as prior studies often employ varied or impractical quantum resources to construct datasets, resulting in unfair comparisons. To address this, we systematically benchmark DL models against traditional ML approaches across three families of Hamiltonian, scaling up to 127 qubits in three crucial ground-state learning tasks while enforcing equivalent quantum resource usage. Our results reveal that ML models often achieve performance comparable to or even exceeding that of DL approaches across all tasks. Furthermore, a randomization test demonstrates that measurement input features have minimal impact on DL models' prediction performance. These findings challenge the necessity of current DL models in many quantum system learning scenarios and provide valuable insights into their effective utilization.


Mixing times of data-augmentation Gibbs samplers for high-dimensional probit regression

arXiv.org Machine Learning

We investigate the convergence properties of popular data-augmentation samplers for Bayesian probit regression. Leveraging recent results on Gibbs samplers for log-concave targets, we provide simple and explicit non-asymptotic bounds on the associated mixing times (in Kullback-Leibler divergence). The bounds depend explicitly on the design matrix and the prior precision, while they hold uniformly over the vector of responses. We specialize the results for different regimes of statistical interest, when both the number of data points $n$ and parameters $p$ are large: in particular we identify scenarios where the mixing times remain bounded as $n,p\to\infty$, and ones where they do not. The results are shown to be tight (in the worst case with respect to the responses) and provide guidance on choices of prior distributions that provably lead to fast mixing. An empirical analysis based on coupling techniques suggests that the bounds are effective in predicting practically observed behaviours.


Thompson Sampling-like Algorithms for Stochastic Rising Bandits

arXiv.org Machine Learning

Stochastic rising rested bandit (SRRB) is a setting where the arms' expected rewards increase as they are pulled. It models scenarios in which the performances of the different options grow as an effect of an underlying learning process (e.g., online model selection). Even if the bandit literature provides specifically crafted algorithms based on upper-confidence bounds for such a setting, no study about Thompson sampling TS-like algorithms has been performed so far. The strong regularity of the expected rewards in the SRRB setting suggests that specific instances may be tackled effectively using adapted and sliding-window TS approaches. This work provides novel regret analyses for such algorithms in SRRBs, highlighting the challenges and providing new technical tools of independent interest. Our results allow us to identify under which assumptions TS-like algorithms succeed in achieving sublinear regret and which properties of the environment govern the complexity of the regret minimization problem when approached with TS. Furthermore, we provide a regret lower bound based on a complexity index we introduce. Finally, we conduct numerical simulations comparing TS-like algorithms with state-of-the-art approaches for SRRBs in synthetic and real-world settings.


Turbocharging Gaussian Process Inference with Approximate Sketch-and-Project

arXiv.org Machine Learning

Gaussian processes (GPs) play an essential role in biostatistics, scientific machine learning, and Bayesian optimization for their ability to provide probabilistic predictions and model uncertainty. However, GP inference struggles to scale to large datasets (which are common in modern applications), since it requires the solution of a linear system whose size scales quadratically with the number of samples in the dataset. We propose an approximate, distributed, accelerated sketch-and-project algorithm ($\texttt{ADASAP}$) for solving these linear systems, which improves scalability. We use the theory of determinantal point processes to show that the posterior mean induced by sketch-and-project rapidly converges to the true posterior mean. In particular, this yields the first efficient, condition number-free algorithm for estimating the posterior mean along the top spectral basis functions, showing that our approach is principled for GP inference. $\texttt{ADASAP}$ outperforms state-of-the-art solvers based on conjugate gradient and coordinate descent across several benchmark datasets and a large-scale Bayesian optimization task. Moreover, $\texttt{ADASAP}$ scales to a dataset with $> 3 \cdot 10^8$ samples, a feat which has not been accomplished in the literature.


Online Decision-Focused Learning

arXiv.org Machine Learning

Decision-focused learning (DFL) is an increasingly popular paradigm for training predictive models whose outputs are used in decision-making tasks. Instead of merely optimizing for predictive accuracy, DFL trains models to directly minimize the loss associated with downstream decisions. This end-to-end strategy holds promise for tackling complex combinatorial problems; however, existing studies focus solely on scenarios where a fixed batch of data is available and the objective function does not change over time. We instead investigate DFL in dynamic environments where the objective function and data distribution evolve over time. This setting is challenging because the objective function has zero or undefined gradients -- which prevents the use of standard first-order optimization methods -- and is generally non-convex. To address these difficulties, we (i) regularize the objective to make it differentiable and (ii) make use of the optimism principle, based on a near-optimal oracle along with an appropriate perturbation. This leads to a practical online algorithm for which we establish bounds on the expected dynamic regret, both when the decision space is a simplex and when it is a general bounded convex polytope. Finally, we demonstrate the effectiveness of our algorithm by comparing its performance with a classic prediction-focused approach on a simple knapsack experiment.


From stability of Langevin diffusion to convergence of proximal MCMC for non-log-concave sampling

arXiv.org Machine Learning

We consider the problem of sampling distributions stemming from non-convex potentials with Unadjusted Langevin Algorithm (ULA). We prove the stability of the discrete-time ULA to drift approximations under the assumption that the potential is strongly convex at infinity. In many context, e.g. imaging inverse problems, potentials are non-convex and non-smooth. Proximal Stochastic Gradient Langevin Algorithm (PSGLA) is a popular algorithm to handle such potentials. It combines the forward-backward optimization algorithm with a ULA step. Our main stability result combined with properties of the Moreau envelope allows us to derive the first proof of convergence of the PSGLA for non-convex potentials. We empirically validate our methodology on synthetic data and in the context of imaging inverse problems. In particular, we observe that PSGLA exhibits faster convergence rates than Stochastic Gradient Langevin Algorithm for posterior sampling while preserving its restoration properties.