MERGE: Multi-faceted Hierarchical Graph-based GNN for Gene Expression Prediction from Whole Slide Histopathology Images

Recent advances in Spatial Transcriptomics (ST) pair histology images with spatially resolved gene expression profiles, enabling predictions of gene expression across different tissue locations based on image patches. This opens up new possibilities for enhancing whole slide image (WSI) prediction tasks with localized gene expression. However, existing methods fail to fully leverage the interactions between different tissue locations, which are crucial for accurate joint prediction. To address this, we introduce MERGE (Multi-faceted hiErarchical gRaph for Gene Expressions), which combines a multi-faceted hierarchical graph construction strategy with graph neural networks (GNN) to improve gene expression predictions from WSIs. By clustering tissue image patches based on both spatial and morphological features, and incorporating intra- and inter-cluster edges, our approach fosters interactions between distant tissue locations during GNN learning. As an additional contribution, we evaluate different data smoothing techniques that are necessary to mitigate artifacts in ST data, often caused by technical imperfections. We advocate for adopting gene-aware smoothing methods that are more biologically justified. Experimental results on gene expression prediction show that our GNN method outperforms state-of-the-art techniques across multiple metrics.

CA-MoE: Channel-Adapted MoE for Incremental Weather Forecasting

Atmospheric science is intricately connected with other fields, e.g., geography and aerospace. Most existing approaches involve training a joint atmospheric and geographic model from scratch, which incurs significant computational costs and overlooks the potential for incremental learning of weather variables across different domains. In this paper, we introduce incremental learning to weather forecasting and propose a novel structure that allows for the flexible expansion of variables within the model. Specifically, our method presents a Channel-Adapted MoE (CA-MoE) that employs a divide-and-conquer strategy. This strategy assigns variable training tasks to different experts by index embedding and reduces computational complexity through a channel-wise Top-K strategy. Experiments conducted on the widely utilized ERA5 dataset reveal that our method, utilizing only approximately 15\% of trainable parameters during the incremental stage, attains performance that is on par with state-of-the-art competitors. Notably, in the context of variable incremental experiments, our method demonstrates negligible issues with catastrophic forgetting.

Explainable and Interpretable Multimodal Large Language Models: A Comprehensive Survey

The rapid development of Artificial Intelligence (AI) has revolutionized numerous fields, with large language models (LLMs) and computer vision (CV) systems driving advancements in natural language understanding and visual processing, respectively. The convergence of these technologies has catalyzed the rise of multimodal AI, enabling richer, cross-modal understanding that spans text, vision, audio, and video modalities. Multimodal large language models (MLLMs), in particular, have emerged as a powerful framework, demonstrating impressive capabilities in tasks like image-text generation, visual question answering, and cross-modal retrieval. Despite these advancements, the complexity and scale of MLLMs introduce significant challenges in interpretability and explainability, essential for establishing transparency, trustworthiness, and reliability in high-stakes applications. This paper provides a comprehensive survey on the interpretability and explainability of MLLMs, proposing a novel framework that categorizes existing research across three perspectives: (I) Data, (II) Model, (III) Training \& Inference. We systematically analyze interpretability from token-level to embedding-level representations, assess approaches related to both architecture analysis and design, and explore training and inference strategies that enhance transparency. By comparing various methodologies, we identify their strengths and limitations and propose future research directions to address unresolved challenges in multimodal explainability. This survey offers a foundational resource for advancing interpretability and transparency in MLLMs, guiding researchers and practitioners toward developing more accountable and robust multimodal AI systems.

From ChebNet to ChebGibbsNet

Recent advancements in Spectral Graph Convolutional Networks (SpecGCNs) have led to state-of-the-art performance in various graph representation learning tasks. To exploit the potential of SpecGCNs, we analyze corresponding graph filters via polynomial interpolation, the cornerstone of graph signal processing. Different polynomial bases, such as Bernstein, Chebyshev, and monomial basis, have various convergence rates that will affect the error in polynomial interpolation. Although adopting Chebyshev basis for interpolation can minimize maximum error, the performance of ChebNet is still weaker than GPR-GNN and BernNet. \textbf{We point out it is caused by the Gibbs phenomenon, which occurs when the graph frequency response function approximates the target function.} It reduces the approximation ability of a truncated polynomial interpolation. In order to mitigate the Gibbs phenomenon, we propose to add the Gibbs damping factor with each term of Chebyshev polynomials on ChebNet. As a result, our lightweight approach leads to a significant performance boost. Afterwards, we reorganize ChebNet via decoupling feature propagation and transformation. We name this variant as \textbf{ChebGibbsNet}. Our experiments indicate that ChebGibbsNet is superior to other advanced SpecGCNs, such as GPR-GNN and BernNet, in both homogeneous graphs and heterogeneous graphs.

SceneTAP: Scene-Coherent Typographic Adversarial Planner against Vision-Language Models in Real-World Environments

Large vision-language models (LVLMs) have shown remarkable capabilities in interpreting visual content. While existing works demonstrate these models' vulnerability to deliberately placed adversarial texts, such texts are often easily identifiable as anomalous. In this paper, we present the first approach to generate scene-coherent typographic adversarial attacks that mislead advanced LVLMs while maintaining visual naturalness through the capability of the LLM-based agent. Our approach addresses three critical questions: what adversarial text to generate, where to place it within the scene, and how to integrate it seamlessly. We propose a training-free, multi-modal LLM-driven scene-coherent typographic adversarial planning (SceneTAP) that employs a three-stage process: scene understanding, adversarial planning, and seamless integration. The SceneTAP utilizes chain-of-thought reasoning to comprehend the scene, formulate effective adversarial text, strategically plan its placement, and provide detailed instructions for natural integration within the image. This is followed by a scene-coherent TextDiffuser that executes the attack using a local diffusion mechanism. We extend our method to real-world scenarios by printing and placing generated patches in physical environments, demonstrating its practical implications. Extensive experiments show that our scene-coherent adversarial text successfully misleads state-of-the-art LVLMs, including ChatGPT-4o, even after capturing new images of physical setups. Our evaluations demonstrate a significant increase in attack success rates while maintaining visual naturalness and contextual appropriateness. This work highlights vulnerabilities in current vision-language models to sophisticated, scene-coherent adversarial attacks and provides insights into potential defense mechanisms.

Gradient Masking All-at-Once: Ensemble Everything Everywhere Is Not Robust

Ensemble everything everywhere is a defense to adversarial examples that was recently proposed to make image classifiers robust. This defense works by ensembling a model's intermediate representations at multiple noisy image resolutions, producing a single robust classification. This defense was shown to be effective against multiple state-of-the-art attacks. Perhaps even more convincingly, it was shown that the model's gradients are perceptually aligned: attacks against the model produce noise that perceptually resembles the targeted class. In this short note, we show that this defense is not robust to adversarial attack. We first show that the defense's randomness and ensembling method cause severe gradient masking. We then use standard adaptive attack techniques to reduce the defense's robust accuracy from 48% to 1% on CIFAR-100 and from 62% to 4% on CIFAR-10, under the $\ell_\infty$-norm threat model with $\varepsilon=8/255$.

Enhancing Low Dose Computed Tomography Images Using Consistency Training Techniques

Diffusion models have significant impact on wide range of generative tasks, especially on image inpainting and restoration. Although the improvements on aiming for decreasing number of function evaluations (NFE), the iterative results are still computationally expensive. Consistency models are as a new family of generative models, enable single-step sampling of high quality data without the need for adversarial training. In this paper, we introduce the beta noise distribution, which provides flexibility in adjusting noise levels. This is combined with a sinusoidal curriculum that enhances the learning of the trajectory between the noise distribution and the posterior distribution of interest, allowing High Noise Improved Consistency Training (HN-iCT) to be trained in a supervised fashion. Additionally, High Noise Improved Consistency Training with Image Condition (HN-iCT-CN) architecture is introduced, enables to take Low Dose images as a condition for extracting significant features by Weighted Attention Gates (WAG).Our results indicate that unconditional image generation using HN-iCT significantly outperforms basic CT and iCT training techniques with NFE=1 on the CIFAR10 and CelebA datasets. Moreover, our image-conditioned model demonstrates exceptional performance in enhancing low-dose (LD) CT scans.

Semantic or Covariate? A Study on the Intractable Case of Out-of-Distribution Detection

The primary goal of out-of-distribution (OOD) detection tasks is to identify inputs with semantic shifts, i.e., if samples from novel classes are absent in the in-distribution (ID) dataset used for training, we should reject these OOD samples rather than misclassifying them into existing ID classes. However, we find the current definition of "semantic shift" is ambiguous, which renders certain OOD testing protocols intractable for the post-hoc OOD detection methods based on a classifier trained on the ID dataset. In this paper, we offer a more precise definition of the Semantic Space and the Covariate Space for the ID distribution, allowing us to theoretically analyze which types of OOD distributions make the detection task intractable. To avoid the flaw in the existing OOD settings, we further define the "Tractable OOD" setting which ensures the distinguishability of OOD and ID distributions for the post-hoc OOD detection methods. Finally, we conduct several experiments to demonstrate the necessity of our definitions and validate the correctness of our theorems.

Spider: Any-to-Many Multimodal LLM

Multimodal LLMs (MLLMs) have emerged as an extension of Large Language Models (LLMs), enabling the integration of various modalities. However, Any-to-Any MLLMs are limited to generating pairwise modalities 'Text + X' within a single response, such as Text + {Image or Audio or Video}. To address this limitation, we introduce Spider, a novel efficient Any-to-Many Modalities Generation (AMMG) framework, which can generate an arbitrary combination of modalities 'Text + Xs', such as Text + {Image and Audio and Video}. To achieve efficient AMMG, our Spider integrates three core components: a Base Model for basic X-to-X (i.e., Any-to-Any) modality processing, a novel Efficient Decoders-Controller for controlling multimodal Decoders to generate Xs (many-modal) contents, and an Any-to-Many Instruction Template designed for producing Xs signal prompts. To train Spider, we constructed a novel Text-formatted Many-Modal (TMM) dataset, which facilitates the learning of the X-to-Xs (i.e., Any-to-Many) capability necessary for AMMG. Ultimately, the well-trained Spider generates a pseudo X-to-Xs dataset, the first-ever X-to-Xs many-modal dataset, enhancing the potential for AMMG task in future research. Overall, this work not only pushes the boundary of multimodal interaction but also provides rich data support for advancing the field.

Advancing Sustainability via Recommender Systems: A Survey

Human behavioral patterns and consumption paradigms have emerged as pivotal determinants in environmental degradation and climate change, with quotidian decisions pertaining to transportation, energy utilization, and resource consumption collectively precipitating substantial ecological impacts. Recommender systems, which generate personalized suggestions based on user preferences and historical interaction data, exert considerable influence on individual behavioral trajectories. However, conventional recommender systems predominantly optimize for user engagement and economic metrics, inadvertently neglecting the environmental and societal ramifications of their recommendations, potentially catalyzing over-consumption and reinforcing unsustainable behavioral patterns. Given their instrumental role in shaping user decisions, there exists an imperative need for sustainable recommender systems that incorporate sustainability principles to foster eco-conscious and socially responsible choices. This comprehensive survey addresses this critical research gap by presenting a systematic analysis of sustainable recommender systems. As these systems can simultaneously advance multiple sustainability objectives--including resource conservation, sustainable consumer behavior, and social impact enhancement--examining their implementations across distinct application domains provides a more rigorous analytical framework. Through a methodological analysis of domain-specific implementations encompassing transportation, food, buildings, and auxiliary sectors, we can better elucidate how these systems holistically advance sustainability objectives while addressing sector-specific constraints and opportunities. Moreover, we delineate future research directions for evolving recommender systems beyond sustainability advocacy toward fostering environmental resilience and social consciousness in society.