The exploration of cellular heterogeneity within the tumor microenvironment (TME) via single-cell RNA sequencing (scRNA-seq) is essential for understanding cancer progression and response to therapy. Current scRNA-seq approaches, however, lack spatial context and rely on incomplete datasets of ligand-receptor interactions (LRIs), limiting accurate cell type annotation and cell-cell communication (CCC) inference. This study addresses these challenges using a novel graph neural network (GNN) model that enhances cell type prediction and cell interaction analysis. Our study utilized a dataset consisting of 49,020 cells from 19 patients across three cancer types: Leukemia, Breast Invasive Carcinoma, and Colorectal Cancer. The proposed scGSL model demonstrated robust performance, achieving an average accuracy of 84.83%, precision of 86.23%, recall of 81.51%, and an F1 score of 80.92% across all datasets. These metrics represent a significant enhancement over existing methods, which typically exhibit lower performance metrics. Additionally, by reviewing existing literature on gene interactions within the TME, the scGSL model proves to robustly identify biologically meaningful gene interactions in an unsupervised manner, validated by significant expression differences in key gene pairs across various cancers. The source code and data used in this paper can be found in https://github.com/LiYuechao1998/scGSL.

Recent advances in CV and NLP have inspired researchers to develop general-purpose graph foundation models through pre-training across diverse domains. However, a fundamental challenge arises from the substantial differences in graph topologies across domains. Additionally, real-world graphs are often sparse and prone to noisy connections and adversarial attacks. To address these issues, we propose the Multi-Domain Graph Foundation Model (MDGFM), a unified framework that aligns and leverages cross-domain topological information to facilitate robust knowledge transfer. MDGFM bridges different domains by adaptively balancing features and topology while refining original graphs to eliminate noise and align topological structures. To further enhance knowledge transfer, we introduce an efficient prompt-tuning approach. By aligning topologies, MDGFM not only improves multi-domain pre-training but also enables robust knowledge transfer to unseen domains. Theoretical analyses provide guarantees of MDGFM's effectiveness and domain generalization capabilities. Extensive experiments on both homophilic and heterophilic graph datasets validate the robustness and efficacy of our method.

Modern clustering approaches often trade interpretability for performance, particularly in deep learning-based methods. We present Generative Kernel Spectral Clustering (GenKSC), a novel model combining kernel spectral clustering with generative modeling to produce both well-defined clusters and interpretable representations. By augmenting weighted variance maximization with reconstruction and clustering losses, our model creates an explorable latent space where cluster characteristics can be visualized through traversals along cluster directions. Results on MNIST and FashionMNIST datasets demonstrate the model's ability to learn meaningful cluster representations.

In real-world regression tasks, datasets frequently exhibit imbalanced distributions, characterized by a scarcity of data in high-complexity regions and an abundance in low-complexity areas. This imbalance presents significant challenges for existing classification methods with clear class boundaries, while highlighting a scarcity of approaches specifically designed for imbalanced regression problems. To better address these issues, we introduce a novel concept of Imbalanced Regression, which takes into account both the complexity of the problem and the density of data points, extending beyond traditional definitions that focus only on data density. Furthermore, we propose Error Distribution Smoothing (EDS) as a solution to tackle imbalanced regression, effectively selecting a representative subset from the dataset to reduce redundancy while maintaining balance and representativeness. Through several experiments, EDS has shown its effectiveness, and the related code and dataset can be accessed at https://anonymous.4open.science/r/Error-Distribution-Smoothing-762F.

In collaborative machine learning, data valuation, i.e., evaluating the contribution of each client' data to the machine learning model, has become a critical task for incentivizing and selecting positive data contributions. However, existing studies often assume that clients engage in data valuation truthfully, overlooking the practical motivation for clients to exaggerate their contributions. To unlock this threat, this paper introduces the first data overvaluation attack, enabling strategic clients to have their data significantly overvalued. Furthermore, we propose a truthful data valuation metric, named Truth-Shapley. Truth-Shapley is the unique metric that guarantees some promising axioms for data valuation while ensuring that clients' optimal strategy is to perform truthful data valuation. Our experiments demonstrate the vulnerability of existing data valuation metrics to the data overvaluation attack and validate the robustness and effectiveness of Truth-Shapley.

This paper focuses on linear regression models with non-conjugate sparsity-inducing regularizers such as lasso and group lasso. Although empirical Bayes approach enables us to estimate the regularization parameter, little is known on the properties of the estimators. In particular, there are many unexplained aspects regarding the specific conditions under which the mechanism of automatic relevance determination (ARD) occurs. In this paper, we derive the empirical Bayes estimators for the group lasso regularized linear regression models with a limited number of parameters. It is shown that the estimators diverge under a certain condition, giving rise to the ARD mechanism. We also prove that empirical Bayes methods can produce ARD mechanism in general regularized linear regression models and clarify the conditions under which models such as ridge, lasso, and group lasso can produce ARD mechanism.

This paper proposes a hierarchical Bayesian multitask learning model that is applicable to the general multi-task binary classification learning problem where the model assumes a shared sparsity structure across different tasks. We derive a computationally efficient inference algorithm based on variational inference to approximate the posterior distribution. We demonstrate the potential of the new approach on various synthetic datasets and for predicting human health status based on microbiome profile. Our analysis incorporates data pooled from multiple microbiome studies, along with a comprehensive comparison with other benchmark methods. Results in synthetic datasets show that the proposed approach has superior support recovery property when the underlying regression coefficients share a common sparsity structure across different tasks. Our experiments on microbiome classification demonstrate the utility of the method in extracting informative taxa while providing well-calibrated predictions with uncertainty quantification and achieving competitive performance in terms of prediction metrics. Notably, despite the heterogeneity of the pooled datasets (e.g., different experimental objectives, laboratory setups, sequencing equipment, patient demographics), our method delivers robust results.

Estimating the mean-variance efficient (MVE) frontier is crucial for asset pricing and investment management. Yet, estimating the tangency portfolio (Markowitz, 1952) using the unbalanced panel of thousands of individual asset returns proves impracticable. Empirical studies typically consider a "diversified" set of test assets (e.g., ME-BM 25 portfolios) to estimate and evaluate factor models, hoping these test assets or a few common factors can span the same efficient frontier as individual assets. However, popular factor models hardly explain the cross section of conventional prespecified test assets (e.g., Kozak et al., 2018; Lopez-Lira and Roussanov, 2020), not to mention the ad hoc nature of these test assets hampers the effectiveness of model estimations and evaluations (Lewellen et al., 2010; Ang et al., 2020). For example, characteristics-based test assets are often limited to univariate-and bivariate-sorted portfolios due to the challenges of high-dimensional sorting (Cochrane, 2011), overlooking nonlinearity and asymmetric interactions (that do not uniformly apply to all assets), even with dependent sorting (Daniel et al., 1997).

From extracting features to generating text, the outputs of large language models (LLMs) typically rely on their final layers, following the conventional wisdom that earlier layers capture only low-level cues. However, our analysis shows that intermediate layers can encode even richer representations, often improving performance on a wide range of downstream tasks. To explain and quantify these hidden-layer properties, we propose a unified framework of representation quality metrics based on information theory, geometry, and invariance to input perturbations. Our framework highlights how each model layer balances information compression and signal preservation, revealing why mid-depth embeddings can exceed the last layer's performance. Through extensive experiments on 32 text-embedding tasks and comparisons across model architectures (transformers, state-space models) and domains (language, vision), we demonstrate that intermediate layers consistently provide stronger features. These findings challenge the standard focus on final-layer embeddings and open new directions for model analysis and optimization, including strategic use of mid-layer representations for more robust and accurate AI systems.

Action Quality Assessment (AQA) -- the ability to quantify the quality of human motion, actions, or skill levels and provide feedback -- has far-reaching implications in areas such as low-cost physiotherapy, sports training, and workforce development. As such, it has become a critical field in computer vision & video understanding over the past decade. Significant progress has been made in AQA methodologies, datasets, & applications, yet a pressing need remains for a comprehensive synthesis of this rapidly evolving field. In this paper, we present a thorough survey of the AQA landscape, systematically reviewing over 200 research papers using the preferred reporting items for systematic reviews & meta-analyses (PRISMA) framework. We begin by covering foundational concepts & definitions, then move to general frameworks & performance metrics, & finally discuss the latest advances in methodologies & datasets. This survey provides a detailed analysis of research trends, performance comparisons, challenges, & future directions. Through this work, we aim to offer a valuable resource for both newcomers & experienced researchers, promoting further exploration & progress in AQA. Data are available at https://haoyin116.github.io/Survey_of_AQA/