NeurIPS 2025 Papers

Machine unlearning has emerged as a prevalent technical solution for selectively removing unwanted knowledge absorbed during pre-training, without requiring full retraining. While recent unlearning techniques can effectively remove undesirable content without severely compromising performance on standard benchmarks, we find that they may inadvertently create ``knowledge holes''---unintended losses of benign knowledge that standard benchmarks fail to capture. To probe where unlearned models reveal knowledge holes, we propose a test case generation framework that explores both immediate neighbors of unlearned content and broader areas of potential failures. Our evaluation demonstrates significant hidden costs of unlearning: up to 98.7\% of the test cases yield irrelevant or nonsensical responses from unlearned models, despite being answerable by the pretrained model. These findings necessitate rethinking the conventional approach to evaluating knowledge preservation in unlearning, moving beyond standard, static benchmarks.

Understanding how knowledge is distributed across the layers of generative models is crucial for improving interpretability, controllability, and adaptation. While prior work has explored knowledge localization in UNet-based architectures, Diffusion Transformer (DiT)-based models remain underexplored in this context. In this paper, we propose a model- and knowledge-agnostic method to localize where specific types of knowledge are encoded within the DiT blocks. We evaluate our method on state-of-the-art DiT-based models, including PixArt-$\alpha$, FLUX, and SANA, across six diverse knowledge categories. We show that the identified blocks are both interpretable and causally linked to the expression of knowledge in generated outputs. Building on these insights, we apply our localization framework to two key applications: *model personalization* and *knowledge unlearning*. In both settings, our localized fine-tuning approach enables efficient and targeted updates, reducing computational cost, improving task-specific performance, and better preserving general model behavior with minimal interference to unrelated or surrounding content. Overall, our findings offer new insights into the internal structure of DiTs and introduce a practical pathway for more interpretable, efficient, and controllable model editing.

Continual learning in computer vision faces the critical challenge of catastrophic forgetting, where models struggle to retain prior knowledge while adapting to new tasks. Although recent studies have attempted to leverage the generalization capabilities of pre-trained models to mitigate overfitting on current tasks, models still tend to forget details of previously learned categories as tasks progress, leading to misclassification. To address these limitations, we introduce a novel Knowledge Graph Enhanced Generative Multi-modal model (KG-GMM) that builds an evolving knowledge graph throughout the learning process. Our approach utilizes relationships within the knowledge graph to augment the class labels and assigns different relations to similar categories to enhance model differentiation. During testing, we propose a Knowledge Graph Augmented Inference method that locates specific categories by analyzing relationships within the generated text, thereby reducing the loss of detailed information about old classes when learning new knowledge and alleviating forgetting. Experiments demonstrate that our method effectively leverages relational information to help the model correct mispredictions, achieving state-of-the-art results in both conventional CIL and few-shot CIL settings, confirming the efficacy of knowledge graphs at preserving knowledge in the continual learning scenarios.

Entity alignment (EA) aims to merge two knowledge graphs (KGs) by identifying equivalent entity pairs. Existing methods can be categorized into symbolic and neural models. Symbolic models, while precise, struggle with substructure heterogeneity and sparsity, whereas neural models, although effective, generally lack interpretability and cannot handle uncertainty. We propose NeuSymEA, a unified neuro-symbolic reasoning framework that combines the strengths of both methods to fully exploit the cross-KG structural pattern for robust entity alignment. NeuSymEA models the joint probability of all possible pairs' truth scores in a Markov random field, regulated by a set of rules, and optimizes it with the variational EM algorithm. In the E-step, a neural model parameterizes the truth score distributions and infers missing alignments. In the M-step, the rule weights are updated based on the observed and inferred alignments, handling uncertainty. We introduce an efficient symbolic inference engine driven by logic deduction, enabling reasoning with extended rule lengths. NeuSymEA achieves a significant 7.6\% hit@1 improvement on $DBP15K_{ZH-EN}$ compared with strong baselines and demonstrates robustness in low-resource settings, achieving 73.7\% hit@1 accuracy on $DBP15K_{FR-EN}$ with only 1\% pairs as seed alignments. Codes are released at https://github.com/chensyCN/NeuSymEA-NeurIPS25.

This paper introduces Codified Profiles for role-playing, a novel approach that represents character logic as structured, executable functions for behavioral decision-making. Converted by large language model (LLM) from textual profiles, each codified profile defines a set of functions parse_by_scene(scene) that output multiple logic-grounded assertions according to scene, using both explicit control structures (e.g., if-then-else) and flexible check_condition(scene, question) functions where each question is a semantically meaningful prompt about the scene (e.g., "Is the character in danger?") discriminated by the role-playing LLM as true, false, or unknown. This explicit representation offers three key advantages over traditional prompt-based textual profiles, which append character descriptions directly into text prompts: (1) Persistence, by enforcing complete and consistent execution of character logic, rather than relying on the model's implicit reasoning; (2) Updatability, through systematic inspection and revision of behavioral logic, which is difficult to track or debug in prompt-only approaches; (3) Controllable Randomness, by supporting stochastic behavior directly within the logic, enabling fine-grained variability that prompting alone struggles to achieve. To validate these advantages, we introduce a new benchmark constructed from 83 characters and 5,141 scenes curated from Fandom, using natural language inference (NLI)-based scoring to compare character responses against ground-truths. Our experiments demonstrate the significant benefits of codified profiles in improving persistence, updatability, and behavioral diversity. Notably, by offloading a significant portion of reasoning to preprocessing, codified profiles enable even 1B-parameter models to perform high-quality role-playing, providing an efficient, lightweight foundation for local deployment of role-play agents.

Abductive Learning (ABL) integrates machine learning with logical reasoning in a loop: a learning model predicts symbolic concept labels from raw inputs, which are revised through abduction using domain knowledge and then fed back for retraining. However, due to the nondeterminism of abduction, the training process often suffers from instability, especially when the knowledge base is large and complex, resulting in a prohibitively large abduction space. While prior works focus on improving candidate selection within this space, they typically treat the knowledge base as a static black box. In this work, we propose Curriculum Abductive Learning (C-ABL), a method that explicitly leverages the internal structure of the knowledge base to address the ABL training challenges. C-ABL partitions the knowledge base into a sequence of sub-bases, progressively introduced during training. This reduces the abduction space throughout training and enables the model to incorporate logic in a stepwise, smooth way. Experiments across multiple tasks show that C-ABL outperforms previous ABL implementations, significantly improves training stability, convergence speed, and final accuracy, especially under complex knowledge setting.

The dynamic nature of information necessitates continuously updating large vision-language models (LVLMs). While recent knowledge editing techniques hint at promising directions, they often focus on editing a single modality (vision or language) in isolation. This prevalent practice neglects the inherent multimodality of LVLMs and the continuous nature of knowledge updates, potentially leading to suboptimal editing outcomes when considering the interplay between modalities and the need for ongoing knowledge refinement. To address these limitations, we propose MemEIC, a novel method for Continual and Compositional Knowledge Editing (CCKE) in LVLMs. MemEIC enables compositional editing of both visual and textual knowledge sequentially. Our approach employs a hybrid external-internal editor featuring a dual external memory for cross-modal evidence retrieval and dual LoRA adapters that facilitate disentangled parameter updates for each modality. A key component is a brain-inspired knowledge connector, activated selectively for compositional reasoning, that integrates information across different modalities. Experiments demonstrate that MemEIC significantly improves performance on complex multimodal questions and effectively preserves prior edits, setting a new benchmark for CCKE in LVLMs. Our project is available at https://github.com/MemEIC/MemEIC.

Directed acyclic graph (DAG) learning is a central task in structure discovery and causal inference. Although the field has witnessed remarkable advances over the past few years, it remains statistically and computationally challenging to learn a single (point estimate) DAG from data, let alone provide uncertainty quantification. We address the difficult task of quantifying graph uncertainty by developing a Bayesian variational inference framework based on novel, provably valid distributions that have support directly on the space of sparse DAGs. These distributions, which we use to define our prior and variational posterior, are induced by a projection operation that maps an arbitrary continuous distribution onto the space of sparse weighted acyclic adjacency matrices. While this projection is combinatorial, it can be solved efficiently using recent continuous reformulations of acyclicity constraints. We empirically demonstrate that our method, \texttt{ProDAG}, can outperform state-of-the-art alternatives in both accuracy and uncertainty quantification.

Few-shot knowledge graph relational learning seeks to perform reasoning over relations given only a limited number of training examples. While existing approaches largely adopt a meta-learning framework for enabling fast adaptation to new relations, they suffer from two key pitfalls. First, they learn relation meta-knowledge in isolation, failing to capture common relational patterns shared across tasks. Second, they struggle to effectively incorporate local, task-specific contexts crucial for rapid adaptation. To address these limitations, we propose MoEMeta, a novel meta-learning framework that disentangles globally shared knowledge from task-specific contexts to enable both effective generalization and rapid adaptation. MoEMeta introduces two key innovations: (i) a mixture-of-experts (MoE) model that learns globally shared relational prototypes to enhance generalization, and (ii) a task-tailored adaptation mechanism that captures local contexts for fast task-specific adaptation. By balancing global generalization with local adaptability, MoEMeta significantly advances few-shot relational learning. Extensive experiments and analyses on three KG benchmarks demonstrate that MoEMeta consistently outperforms existing baselines, achieving state-of-the-art performance.

Many machine learning tasks can benefit from external knowledge. Large knowledge graphs store such knowledge, and embedding methods can be used to distill it into ready-to-use vector representations for downstream applications. For this purpose, current models have however two limitations: they are primarily optimized for link prediction, via local contrastive learning, and their application to the largest graphs requires significant engineering effort due to GPU memory limits. To address these, we introduce SEPAL: a Scalable Embedding Propagation ALgorithm for large knowledge graphs designed to produce high-quality embeddings for downstream tasks at scale. The key idea of SEPAL is to ensure global embedding consistency by optimizing embeddings only on a small core of entities, and then propagating them to the rest of the graph with message passing. We evaluate SEPAL on 7 large-scale knowledge graphs and 46 downstream machine learning tasks. Our results show that SEPAL significantly outperforms previous methods on downstream tasks. In addition, SEPAL scales up its base embedding model, enabling fitting huge knowledge graphs on commodity hardware. Our code is available at: <https://github.com/flefebv/sepal.git>.

Model editing enables targeted updates to the knowledge of large language models (LLMs) with minimal retraining. Among existing approaches, locate-then-edit methods constitute a prominent paradigm: they first identify critical layers, then compute residuals at the final critical layer based on the target edit, and finally apply least-squares-based multi-layer updates via $\textbf{residual distribution}$. While empirically effective, we identify a counterintuitive failure mode: residual distribution, a core mechanism in these methods, introduces weight shift errors that undermine editing precision. Through theoretical and empirical analysis, we show that such errors increase with the distribution distance, batch size, and edit sequence length, ultimately leading to inaccurate or suboptimal edits. To address this, we propose the $\textbf{B}$oundary $\textbf{L}$ayer $\textbf{U}$pdat$\textbf{E (BLUE)}$ strategy to enhance locate-then-edit methods. Sequential batch editing experiments on three LLMs and two datasets demonstrate that BLUE not only delivers an average performance improvement of 35.59\%, significantly advancing the state of the art in model editing, but also enhances the preservation of LLMs' general capabilities. Our code is available at https://github.com/xpq-tech/BLUE.

Knowledge Distillation (KD) aims to train a lightweight student model by transferring knowledge from a large, high-capacity teacher. Recent studies have shown that leveraging diverse teacher perspectives can significantly improve distillation performance; however, achieving such diversity typically requires multiple teacher networks, leading to high computational costs. In this work, we propose a novel cost-efficient knowledge augmentation method for KD that generates diverse multi-views by attaching multiple branches to a single teacher. To ensure meaningful semantic variation across multi-views, we introduce two angular diversity objectives: 1) $\textit{constrained inter-angle diversify loss}$, which maximizes angles between augmented views while preserving proximity to the original teacher output, and 2) $\textit{intra-angle diversify loss}$, which encourages an even distribution of views around the original output. The ensembled knowledge from these angularly diverse views, along with the original teacher, is distilled into the student. We further theoretically demonstrate that our objectives increase the diversity among ensemble members and thereby reduce the upper bound of the ensemble's expected loss, leading to more effective distillation. Experimental results show that our method surpasses an existing knowledge augmentation method across diverse configurations. Moreover, the proposed method is compatible with other KD frameworks in a plug-and-play fashion, providing consistent improvements in generalization performance.

Most existing transfer learning algorithms for high-dimensional models employ a two-step regularization framework, whose success heavily hinges on the assumption that the pre-trained model closely resembles the target. To relax this assumption, we propose a co-regularization process to directly exploit beneficial knowledge from the source domain for high-dimensional generalized linear models. The proposed method learns the target parameter by constraining the source parameters to be close to the target one, thereby preventing fine-tuning failures caused by significantly deviated pre-trained parameters. Our theoretical analysis demonstrates that the proposed method accommodates a broader range of sources than existing two-step frameworks, thus being more robust to less similar sources. Its effectiveness is validated through extensive empirical studies.

Graph Transformer (GT) has recently emerged as a promising neural network architecture for learning graph-structured data. However, its global attention mechanism with quadratic complexity concerning the graph scale prevents wider application to large graphs. Effectively representing graph information while ensuring learning efficiency remains challenging, as our analysis reveals that current GT designs targeting scalability still suffer from the computational bottleneck related to graph-scale operations. In this work, we tackle the GT scalability issue by proposing HubGT, a scalable Graph Transformer boosted by fully decoupled graph processing and simplified learning. HubGT represents the graph by a novel hierarchical scheme exploiting hub labels, which is shown to be more informative than plain adjacency by offering global connections while promoting locality, and is particularly suitable for handling complex graph patterns such as heterophily. We also design algorithms for efficiently constructing and querying the hub label hierarchy tailored for the GT attention training in scalable deployments. Notably, the precomputation and training processes of HubGT achieve complexities linear to the number of graph edges and nodes, respectively, while the training stage completely removes graph-related computations, leading to favorable mini-batch capability and GPU utilization. Extensive experiments demonstrate that HubGT is efficient in terms of computational enhancement and mini-batch capability over existing GT designs on large-scale benchmarks, while achieving top-tier effectiveness on both homophilous and heterophilous graphs.

Finetuning provides a scalable and cost-effective means of customizing language models for specific tasks or response styles, with greater reliability than prompting or in-context learning. In contrast, the conventional wisdom is that injecting knowledge via finetuning results in brittle performance and poor generalization. We argue that the dichotomy of "task customization" (e.g., instruction tuning) and "knowledge injection" (e.g., teaching new facts) is a distinction without a difference. We instead identify concrete factors that explain the heterogeneous effectiveness observed with finetuning. To this end, we conduct a large-scale experimental study of finetuning the frontier Gemini v1.5 model family on a spectrum of datasets that are artificially engineered to interpolate between the strengths and failure modes of finetuning. Our findings indicate that question-answer training data formats provide much stronger knowledge generalization than document/article-style training data, numerical information can be harder for finetuning to retain than categorical information, and models struggle to apply finetuned knowledge during multi-step reasoning even when trained on similar examples---all factors that render ``knowledge injection'' to be especially difficult, even after controlling for considerations like data augmentation and information volume. On the other hand, our findings also indicate that it is not fundamentally more difficult to finetune information about a real-world event than information about writing style.

Irregular data in the real world are usually organized as heterogeneous graphs consisting of multiple types of nodes and edges. However, current heterogeneous graph research confronts three fundamental challenges: i) Benchmark Deficiency, ii) Semantic Disalignment, and iii) Propagation Degradation. In this paper, we construct a large-scale, universal, and joint multi-domain heterogeneous graph dataset named UniHG to facilitate heterogeneous graph representation learning and cross-domain knowledge mining. Overall, UniHG contains 77.31 million nodes and 564 million directed edges with thousands of labels and attributes, which is currently the largest universal heterogeneous graph dataset available to the best of our knowledge. To perform effective learning and provide comprehensively benchmarks on UniHG , two key measures are taken, including i) the semantic alignment strategy for multi-attribute entities, which projects the feature description of multi-attribute nodes and edges into a common embedding space to facilitate information aggregation; ii) proposing the novel Heterogeneous Graph Decoupling (HGD) framework with a specifically designed Anisotropy Feature Propagation (AFP) module for learning effective multi-hop anisotropic propagation kernels. These two strategies enable efficient information propagation among a tremendous number of multi-attribute entities and meanwhile mine multi-attribute association adaptively through the multi-hop aggregation in large-scale heterogeneous graphs. Comprehensive benchmark results demonstrate that our model significantly outperforms existing methods with an accuracy improvement of 28.93\%. And the UniHG can facilitate downstream tasks, achieving an NDCG@20 improvement rate of 11.48\% and 11.71\%. The UniHG dataset and benchmark codes have been released at https://anonymous.4open.science/r/UniHG-AA78.

Uncertain knowledge graphs (UKGs) associate each triple with a confidence score to provide more precise knowledge representations. Recently, since real-world UKGs suffer from the incompleteness, uncertain knowledge graph (UKG) completion attracts more attention, aiming to complete missing triples and confidences. Current studies attempt to learn UKG embeddings to solve this problem, but they neglect the extremely imbalanced distributions of triple confidences. This causes that the learnt embeddings are insufficient to high-quality UKG completion. Thus, in this paper, to address the above issue, we propose a new semi-supervised Confidence Distribution Learning (ssCDL) method for UKG completion, where each triple confidence is transformed into a confidence distribution to introduce more supervision information of different confidences to reinforce the embedding learning process. ssCDL iteratively learns UKG embedding by relational learning on labeled data (i.e., existing triples with confidences) and unlabeled data with pseudo labels (i.e., unseen triples with the generated confidences), which are predicted by meta-learning to augment the training data and rebalance the distribution of triple confidences. Experiments on two UKG datasets demonstrate that ssCDL consistently outperforms the state-of-the-art baselines in different evaluation metrics.

Although Large Language Models (LLMs) have demonstrated remarkable progress, their proficiency in graph-related tasks remains notably limited, hindering the development of truly general-purpose models. Previous attempts, including pretraining graph foundation models or employing supervised fine-tuning, often face challenges such as the scarcity of large-scale, universally represented graph data. We introduce $\texttt{G1}$, a simple yet effective approach demonstrating that Reinforcement Learning (RL) on synthetic graph-theoretic tasks can significantly scale LLMs' graph reasoning abilities. To enable RL training, we curate \erdos, the largest graph reasoning dataset to date comprising 50 diverse graph-theoretic tasks of varying difficulty levels, 100k training data and 5k test data, all drived from real-world graphs. With RL on \erdos, $\texttt{G1}$ obtains substantial improvements in graph reasoning, where our finetuned 3B model even outperforms Qwen2.5-72B-Instruct (24x size). RL-trained models also show strong zero-shot generalization to unseen tasks, domains, and graph encoding schemes, including other graph-theoretic benchmarks as well as real-world node classification and link prediction tasks, without compromising general reasoning abilities. Our findings offer an efficient, scalable path for building strong graph reasoners by finetuning LLMs with RL on graph-theoretic tasks, which combines the strengths of pretrained LLM capabilities with abundant, automatically generated synthetic data, suggesting that LLMs possess graph understanding abilities that RL can elicit successfully. Our implementation is open-sourced at https://github.com/PKU-ML/G1, with models and datasets hosted on Hugging Face collections https://huggingface.co/collections/PKU-ML/g1-683d659e992794fc99618cf2 for broader accessibility.

We present OSKAR, the first multimodal foundation model based on bootstrapped latent feature prediction. Unlike generative or contrastive methods, it avoids memorizing unnecessary details (e.g., pixels), and does not require negative pairs, large memory banks, or hand-crafted augmentations. We propose a novel pretraining strategy: given masked tokens from multiple modalities, predict a subset of missing tokens per modality, supervised by momentum-updated uni-modal target encoders. This design efficiently utilizes the model capacity in learning high-level representations while retaining modality-specific information. Further, we propose a scalable design which decouples the compute cost from the number of modalities using a fixed representative token budget—in both input and target tokens—and introduces a parameter-efficient cross-attention predictor that grounds each prediction in the full multimodal context. We instantiate OSKAR on video, skeleton, and text modalities. Extensive experimental results show that OSKAR's unified pretrained encoder outperforms models with specialized architectures of similar size in action recognition (rgb, skeleton, frozen, low-shot) and localization, video-text retrieval, and video question answering. Project website: https://multimodal-oskar.github.io