There has been a long-standing and widespread belief that Bayesian Optimization (BO) with standard Gaussian process (GP), referred to as standard BO, is ineffective in high-dimensional optimization problems. This perception may partly stem from the intuition that GPs struggle with high-dimensional inputs for covariance modeling and function estimation. While these concerns seem reasonable, empirical evidence supporting this belief is lacking. In this paper, we systematically investigated BO with standard GP regression across a variety of synthetic and real-world benchmark problems for high-dimensional optimization. Surprisingly, the performance with standard GP consistently ranks among the best, often outperforming existing BO methods specifically designed for high-dimensional optimization by a large margin. Contrary to the stereotype, we found that standard GP can serve as a capable surrogate for learning high-dimensional target functions. Without strong structural assumptions, BO with standard GP not only excels in high-dimensional optimization but also proves robust in accommodating various structures within the target functions. Furthermore, with standard GP, achieving promising optimization performance is possible by only using maximum likelihood estimation, eliminating the need for expensive Markov-Chain Monte Carlo (MCMC) sampling that might be required by more complex surrogate models. We thus advocate for a re-evaluation and in-depth study of the potential of standard BO in addressing high-dimensional problems.

Best subset selection is considered the `gold standard' for many sparse learning problems. A variety of optimization techniques have been proposed to attack this non-smooth non-convex problem. In this paper, we investigate the dual forms of a family of $\ell_0$-regularized problems. An efficient primal-dual algorithm is developed based on the primal and dual problem structures. By leveraging the dual range estimation along with the incremental strategy, our algorithm potentially reduces redundant computation and improves the solutions of best subset selection. Theoretical analysis and experiments on synthetic and real-world datasets validate the efficiency and statistical properties of the proposed solutions.

In recent years, there has been a surge in the development of 3D structure-based pre-trained protein models, representing a significant advancement over pre-trained protein language models in various downstream tasks. However, most existing structure-based pre-trained models primarily focus on the residue level, i.e., alpha carbon atoms, while ignoring other atoms like side chain atoms. We argue that modeling proteins at both residue and atom levels is important since the side chain atoms can also be crucial for numerous downstream tasks, for example, molecular docking. Nevertheless, we find that naively combining residue and atom information during pre-training typically fails. We identify a key reason is the information leakage caused by the inclusion of atom structure in the input, which renders residue-level pre-training tasks trivial and results in insufficiently expressive residue representations. To address this issue, we introduce a span mask pre-training strategy on 3D protein chains to learn meaningful representations of both residues and atoms. This leads to a simple yet effective approach to learning protein representation suitable for diverse downstream tasks. Extensive experimental results on binding site prediction and function prediction tasks demonstrate our proposed pre-training approach significantly outperforms other methods. Our code will be made public.

Self-supervised learning (SSL) has been incorporated into many state-of-the-art models in various domains, where SSL defines pretext tasks based on unlabeled datasets to learn contextualized and robust representations. Recently, SSL has been a new trend in exploring the representation learning capability in the realm of tabular data, which is more challenging due to not having explicit relations for learning descriptive representations. This survey aims to systematically review and summarize the recent progress and challenges of SSL for non-sequential tabular data (SSL4NS-TD). We first present a formal definition of NS-TD and clarify its correlation to related studies. Then, these approaches are categorized into three groups -- predictive learning, contrastive learning, and hybrid learning, with their motivations and strengths of representative methods within each direction. On top of this, application issues of SSL4NS-TD are presented, including automatic data engineering, cross-table transferability, and domain knowledge integration. In addition, we elaborate on existing benchmarks and datasets for NS-TD applications to discuss the performance of existing tabular models. Finally, we discuss the challenges of SSL4NS-TD and provide potential directions for future research. We expect our work to be useful in terms of encouraging more research on lowering the barrier to entry SSL for the tabular domain and improving the foundations for implicit tabular data.

Stochastic approximation is a class of algorithms that update a vector iteratively, incrementally, and stochastically, including, e.g., stochastic gradient descent and temporal difference learning. One fundamental challenge in analyzing a stochastic approximation algorithm is to establish its stability, i.e., to show that the stochastic vector iterates are bounded almost surely. In this paper, we extend the celebrated Borkar-Meyn theorem for stability from the Martingale difference noise setting to the Markovian noise setting, which greatly improves its applicability in reinforcement learning, especially in those off-policy reinforcement learning algorithms with linear function approximation and eligibility traces. Central to our analysis is the diminishing asymptotic rate of change of a few functions, which is implied by both a form of strong law of large numbers and a commonly used V4 Lyapunov drift condition and trivially holds if the Markov chain is finite and irreducible.

Motion prediction has been an essential component of autonomous driving systems since it handles highly uncertain and complex scenarios involving moving agents of different types. In this paper, we propose a Multi-Granular TRansformer (MGTR) framework, an encoder-decoder network that exploits context features in different granularities for different kinds of traffic agents. To further enhance MGTR's capabilities, we leverage LiDAR point cloud data by incorporating LiDAR semantic features from an off-the-shelf LiDAR feature extractor. We evaluate MGTR on Waymo Open Dataset motion prediction benchmark and show that the proposed method achieved state-of-the-art performance, ranking 1st on its leaderboard (https://waymo.com/open/challenges/2023/motion-prediction/).

Medical images are often characterized by their structured anatomical representations and spatially inhomogeneous contrasts. Leveraging anatomical priors in neural networks can greatly enhance their utility in resource-constrained clinical settings. Prior research has harnessed such information for image segmentation, yet progress in deformable image registration has been modest. Our work introduces textSCF, a novel method that integrates spatially covariant filters and textual anatomical prompts encoded by visual-language models, to fill this gap. This approach optimizes an implicit function that correlates text embeddings of anatomical regions to filter weights, relaxing the typical translation-invariance constraint of convolutional operations. TextSCF not only boosts computational efficiency but can also retain or improve registration accuracy. By capturing the contextual interplay between anatomical regions, it offers impressive inter-regional transferability and the ability to preserve structural discontinuities during registration. TextSCF's performance has been rigorously tested on inter-subject brain MRI and abdominal CT registration tasks, outperforming existing state-of-the-art models in the MICCAI Learn2Reg 2021 challenge and leading the leaderboard. In abdominal registrations, textSCF's larger model variant improved the Dice score by 11.3% over the second-best model, while its smaller variant maintained similar accuracy but with an 89.13% reduction in network parameters and a 98.34\% decrease in computational operations.

We present the DURel tool that implements the annotation of semantic proximity between uses of words into an online, open source interface. The tool supports standardized human annotation as well as computational annotation, building on recent advances with Word-in-Context models. Annotator judgments are clustered with automatic graph clustering techniques and visualized for analysis. This allows to measure word senses with simple and intuitive micro-task judgments between use pairs, requiring minimal preparation efforts. The tool offers additional functionalities to compare the agreement between annotators to guarantee the inter-subjectivity of the obtained judgments and to calculate summary statistics giving insights into sense frequency distributions, semantic variation or changes of senses over time.

Linear feature extraction at the presence of nonlinear dependencies among the data is a fundamental challenge in unsupervised learning. We propose using a probabilistic Gram-Schmidt (GS) type orthogonalization process in order to detect and map out redundant dimensions. Specifically, by applying the GS process over a family of functions which presumably captures the nonlinear dependencies in the data, we construct a series of covariance matrices that can either be used to identify new large-variance directions, or to remove those dependencies from the principal components. In the former case, we provide information-theoretic guarantees in terms of entropy reduction. In the latter, we prove that under certain assumptions the resulting algorithms detect and remove nonlinear dependencies whenever those dependencies lie in the linear span of the chosen function family. Both proposed methods extract linear features from the data while removing nonlinear redundancies. We provide simulation results on synthetic and real-world datasets which show improved performance over PCA and state-of-the-art linear feature extraction algorithms, both in terms of variance maximization of the extracted features, and in terms of improved performance of classification algorithms. Additionally, our methods are comparable and often outperform the non-linear method of kernel PCA. The term feature extraction refers to a set of techniques used to reduce the number of features (or dimensions) in a dataset by mapping them to new features, while retaining some notion of informativeness.

--Accurate and efficient power flow (PF) analysis is crucial in modern electrical networks' operation and planning. Therefore, there is a need for scalable algorithms that can provide accurate and fast solutions for both small and large scale power networks. As the power network can be interpreted as a graph, Graph Neural Networks (GNNs) have emerged as a promising approach for improving the accuracy and speed of PF approximations by exploiting information sharing via the underlying graph structure. In this study, we introduce PowerFlowNet, a novel GNN architecture for PF approximation that showcases similar performance with the traditional Newton-Raphson method but achieves it 4 times faster in the simple IEEE 14-bus system and 145 times faster in the realistic case of the French high voltage network (6470rte). Meanwhile, it significantly outperforms other traditional approximation methods, such as the DC relaxation method, in terms of performance and execution time; therefore, making PowerFlowNet a highly promising solution for real-world PF analysis. Furthermore, we verify the efficacy of our approach by conducting an in-depth experimental evaluation, thoroughly examining the performance, scalability, interpretability, and architectural dependability of PowerFlowNet. The evaluation provides insights into the behavior and potential applications of GNNs in power system analysis. HE complexity of electrical power systems is continuously rising, largely attributed to the substantial integration of decentralized renewable energy resources. Within this context, power flow (PF) stands as a fundamental challenge in ensuring the stability of power systems, playing a pivotal role in both the operational management and long-term planning of electrical networks. This work used the Dutch national e-infrastructure with the support of the SURF Cooperative using grant no. This publication is part of the project ALIGN4energy (with project number NW A.1389.20.251) of the research programme NW A ORC 2020 which is (partly) financed by the Dutch Research Council (NWO). Stavros is by the HORIZON Europe Drive2X Project 101056934.