Recent advancements in large language models and their multi-modal extensions have demonstrated the effectiveness of unifying generation and understanding through autoregressive next-token prediction. However, despite the critical role of 3D structural generation and understanding (3D GU) in AI for science, these tasks have largely evolved independently, with autoregressive methods remaining underexplored. To bridge this gap, we introduce Uni-3DAR, a unified framework that seamlessly integrates 3D GU tasks via autoregressive prediction. At its core, Uni-3DAR employs a novel hierarchical tokenization that compresses 3D space using an octree, leveraging the inherent sparsity of 3D structures. It then applies an additional tokenization for fine-grained structural details, capturing key attributes such as atom types and precise spatial coordinates in microscopic 3D structures. We further propose two optimizations to enhance efficiency and effectiveness. The first is a two-level subtree compression strategy, which reduces the octree token sequence by up to 8x. The second is a masked next-token prediction mechanism tailored for dynamically varying token positions, significantly boosting model performance. By combining these strategies, Uni-3DAR successfully unifies diverse 3D GU tasks within a single autoregressive framework. Extensive experiments across multiple microscopic 3D GU tasks, including molecules, proteins, polymers, and crystals, validate its effectiveness and versatility. Notably, Uni-3DAR surpasses previous state-of-the-art diffusion models by a substantial margin, achieving up to 256\% relative improvement while delivering inference speeds up to 21.8x faster. The code is publicly available at https://github.com/dptech-corp/Uni-3DAR.

Molecular pretrained representations (MPR) has emerged as a powerful approach for addressing the challenge of limited supervised data in applications such as drug discovery and material design. While early MPR methods relied on 1D sequences and 2D graphs, recent advancements have incorporated 3D conformational information to capture rich atomic interactions. However, these prior models treat molecules merely as discrete atom sets, overlooking the space surrounding them. We argue from a physical perspective that only modeling these discrete points is insufficient. We first present a simple yet insightful observation: naively adding randomly sampled virtual points beyond atoms can surprisingly enhance MPR performance. In light of this, we propose a principled framework that incorporates the entire 3D space spanned by molecules. We implement the framework via a novel Transformer-based architecture, dubbed SpaceFormer, with three key components: (1) grid-based space discretization; (2) grid sampling/merging; and (3) efficient 3D positional encoding. Extensive experiments show that SpaceFormer significantly outperforms previous 3D MPR models across various downstream tasks with limited data, validating the benefit of leveraging the additional 3D space beyond atoms in MPR models.

With the advent of large vision-language models (LVLMs) demonstrating increasingly human-like abilities, a pivotal question emerges: do different LVLMs interpret multimodal sarcasm differently, and can a single model grasp sarcasm from multiple perspectives like humans? To explore this, we introduce an analytical framework using systematically designed prompts on existing multimodal sarcasm datasets. Evaluating 12 state-of-the-art LVLMs over 2,409 samples, we examine interpretive variations within and across models, focusing on confidence levels, alignment with dataset labels, and recognition of ambiguous "neutral" cases. Our findings reveal notable discrepancies -- across LVLMs and within the same model under varied prompts. While classification-oriented prompts yield higher internal consistency, models diverge markedly when tasked with interpretive reasoning. These results challenge binary labeling paradigms by highlighting sarcasm's subjectivity. We advocate moving beyond rigid annotation schemes toward multi-perspective, uncertainty-aware modeling, offering deeper insights into multimodal sarcasm comprehension. Our code and data are available at: https://github.com/CoderChen01/LVLMSarcasmAnalysis

Diffusion Transformers (DiT) have revolutionized high-fidelity image and video synthesis, yet their computational demands remain prohibitive for real-time applications. To solve this problem, feature caching has been proposed to accelerate diffusion models by caching the features in the previous timesteps and then reusing them in the following timesteps. However, at timesteps with significant intervals, the feature similarity in diffusion models decreases substantially, leading to a pronounced increase in errors introduced by feature caching, significantly harming the generation quality. To solve this problem, we propose TaylorSeer, which firstly shows that features of diffusion models at future timesteps can be predicted based on their values at previous timesteps. Based on the fact that features change slowly and continuously across timesteps, TaylorSeer employs a differential method to approximate the higher-order derivatives of features and predict features in future timesteps with Taylor series expansion. Extensive experiments demonstrate its significant effectiveness in both image and video synthesis, especially in high acceleration ratios. For instance, it achieves an almost lossless acceleration of 4.99$\times$ on FLUX and 5.00$\times$ on HunyuanVideo without additional training. On DiT, it achieves $3.41$ lower FID compared with previous SOTA at $4.53$$\times$ acceleration. %Our code is provided in the supplementary materials and will be made publicly available on GitHub. Our codes have been released in Github:https://github.com/Shenyi-Z/TaylorSeer

Dataset distillation has emerged as a powerful approach for reducing data requirements in deep learning. Among various methods, distribution matching-based approaches stand out for their balance of computational efficiency and strong performance. However, existing distance metrics used in distribution matching often fail to accurately capture distributional differences, leading to unreliable measures of discrepancy. In this paper, we reformulate dataset distillation as a minmax optimization problem and introduce Neural Characteristic Function Discrepancy (NCFD), a comprehensive and theoretically grounded metric for measuring distributional differences. NCFD leverages the Characteristic Function (CF) to encapsulate full distributional information, employing a neural network to optimize the sampling strategy for the CF's frequency arguments, thereby maximizing the discrepancy to enhance distance estimation. Simultaneously, we minimize the difference between real and synthetic data under this optimized NCFD measure. Our approach, termed Neural Characteristic Function Matching (\mymethod{}), inherently aligns the phase and amplitude of neural features in the complex plane for both real and synthetic data, achieving a balance between realism and diversity in synthetic samples. Experiments demonstrate that our method achieves significant performance gains over state-of-the-art methods on both low- and high-resolution datasets. Notably, we achieve a 20.5\% accuracy boost on ImageSquawk. Our method also reduces GPU memory usage by over 300$\times$ and achieves 20$\times$ faster processing speeds compared to state-of-the-art methods. To the best of our knowledge, this is the first work to achieve lossless compression of CIFAR-100 on a single NVIDIA 2080 Ti GPU using only 2.3 GB of memory.

Fine-tuning pre-trained Large Language Models (LLMs) for specialized tasks incurs substantial computational and data costs. While model merging offers a training-free solution to integrate multiple task-specific models, existing methods suffer from safety-utility conflicts where enhanced general capabilities degrade safety safeguards. We identify two root causes: \textbf{neuron misidentification} due to simplistic parameter magnitude-based selection, and \textbf{cross-task neuron interference} during merging. To address these challenges, we propose \textbf{LED-Merging}, a three-stage framework that \textbf{L}ocates task-specific neurons via gradient-based attribution, dynamically \textbf{E}lects critical neurons through multi-model importance fusion, and \textbf{D}isjoints conflicting updates through parameter isolation. Extensive experiments on Llama-3-8B, Mistral-7B, and Llama2-13B demonstrate that LED-Merging reduces harmful response rates(\emph{e.g.}, a 31.4\% decrease on Llama-3-8B-Instruct on HarmBench) while preserving 95\% of utility performance(\emph{e.g.}, 52.39\% accuracy on GSM8K). LED-Merging resolves safety-utility conflicts and provides a lightweight, training-free paradigm for constructing reliable multi-task LLMs.

Artificial intelligence (AI) is transforming scientific research, including proteomics. Advances in mass spectrometry (MS)-based proteomics data quality, diversity, and scale, combined with groundbreaking AI techniques, are unlocking new challenges and opportunities in biological discovery. Here, we highlight key areas where AI is driving innovation, from data analysis to new biological insights. These include developing an AI-friendly ecosystem for proteomics data generation, sharing, and analysis; improving peptide and protein identification and quantification; characterizing protein-protein interactions and protein complexes; advancing spatial and perturbation proteomics; integrating multi-omics data; and ultimately enabling AI-empowered virtual cells.

Multimodal large language models (MLLMs) have shown remarkable performance for cross-modal understanding and generation, yet still suffer from severe inference costs. Recently, abundant works have been proposed to solve this problem with token pruning, which identifies the redundant tokens in MLLMs and then prunes them to reduce the computation and KV storage costs, leading to significant acceleration without training. While these methods claim efficiency gains, critical questions about their fundamental design and evaluation remain unanswered: Why do many existing approaches underperform even compared to naive random token selection? Are attention-based scoring sufficient for reliably identifying redundant tokens? Is language information really helpful during token pruning? What makes a good trade-off between token importance and duplication? Are current evaluation protocols comprehensive and unbiased? The ignorance of previous research on these problems hinders the long-term development of token pruning. In this paper, we answer these questions one by one, providing insights into the design of future token pruning methods.

Vision tokens in multimodal large language models often dominate huge computational overhead due to their excessive length compared to linguistic modality. Abundant recent methods aim to solve this problem with token pruning, which first defines an importance criterion for tokens and then prunes the unimportant vision tokens during inference. However, in this paper, we show that the importance is not an ideal indicator to decide whether a token should be pruned. Surprisingly, it usually results in inferior performance than random token pruning and leading to incompatibility to efficient attention computation operators.Instead, we propose DART (Duplication-Aware Reduction of Tokens), which prunes tokens based on its duplication with other tokens, leading to significant and training-free acceleration. Concretely, DART selects a small subset of pivot tokens and then retains the tokens with low duplication to the pivots, ensuring minimal information loss during token pruning. Experiments demonstrate that DART can prune 88.9% vision tokens while maintaining comparable performance, leading to a 1.99$\times$ and 2.99$\times$ speed-up in total time and prefilling stage, respectively, with good compatibility to efficient attention operators. Our codes are available at https://github.com/ZichenWen1/DART.

Inspired by the success of Large Language Models (LLMs), the development of Large Atom Models (LAMs) has gained significant momentum in scientific computation. Since 2022, the Deep Potential team has been actively pretraining LAMs and launched the OpenLAM Initiative to develop an open-source foundation model spanning the periodic table. A core objective is establishing comprehensive benchmarks for reliable LAM evaluation, addressing limitations in existing datasets. As a first step, the LAM Crystal Philately competition has collected over 19.8 million valid structures, including 1 million on the OpenLAM convex hull, driving advancements in generative modeling and materials science applications.