ICLR 2025 论文列表

Despite the impressive performance of general large language models(LLMs), many of their applications in specific domains (e.g., low-data and knowledge-intensive) still confront significant challenges. Supervised fine-tuning (SFT)---where a general LLM is further trained on a small labeled dataset to adapt for specific tasks or domains---has shown great power for developing domain-specific LLMs. However, existing SFT data primarily consist of Question and Answer (Q&A) pairs, which poses a significant challenge for LLMs to comprehend the correlation and logic of knowledge underlying the Q&A. To address this challenge, we propose a conceptually flexible and general framework to boost SFT, namely Knowledge Graph-Driven Supervised Fine-Tuning (KG-SFT). The key idea of KG-SFT is to generate high-quality explanations for each Q&A pair via a structured knowledge graph to enhance the knowledge comprehension and manipulation of LLMs. Specifically, KG-SFT consists of three components: Extractor, Generator, and Detector. For a given Q&A pair, (i) Extractor first identifies entities within Q&A pairs and extracts relevant reasoning subgraphs from external KGs, (ii) Generator then produces corresponding fluent explanations utilizing these reasoning subgraphs, and (iii) finally, Detector performs sentence-level knowledge conflicts detection on these explanations to guarantee the reliability. KG-SFT focuses on generating high-quality explanations to improve the quality of Q&A pair, which reveals a promising direction for supplementing existing data augmentation methods. Extensive experiments on fifteen different domains and six different languages demonstrate the effectiveness of KG-SFT, leading to an accuracy improvement of up to 18% and an average of 8.7% in low-data scenarios.

Retrieval-augmented generation (RAG) has improved large language models (LLMs) by using knowledge retrieval to overcome knowledge deficiencies. However, current RAG methods often fall short of ensuring the depth and completeness of retrieved information, which is necessary for complex reasoning tasks. In this work, we introduce Think-on-Graph 2.0 (ToG-2), a hybrid RAG framework that iteratively retrieves information from both unstructured and structured knowledge sources in a tight-coupling manner. Specifically, ToG-2 leverages knowledge graphs (KGs) to link documents via entities, facilitating deep and knowledge-guided context retrieval. Simultaneously, it utilizes documents as entity contexts to achieve precise and efficient graph retrieval. ToG-2 alternates between graph retrieval and context retrieval to search for in-depth clues relevant to the question, enabling LLMs to generate answers. We conduct a series of well-designed experiments to highlight the following advantages of ToG-2: 1) ToG-2 tightly couples the processes of context retrieval and graph retrieval, deepening context retrieval via the KG while enabling reliable graph retrieval based on contexts; 2) it achieves deep and faithful reasoning in LLMs through an iterative knowledge retrieval process of collaboration between contexts and the KG; and 3) ToG-2 is training-free and plug-and-play compatible with various LLMs. Extensive experiments demonstrate that ToG-2 achieves overall state-of-the-art (SOTA) performance on 6 out of 7 knowledge-intensive datasets with GPT-3.5, and can elevate the performance of smaller models (e.g., LLAMA-2-13B) to the level of GPT-3.5’s direct reasoning. The source code is available on https://anonymous.4open.science/r/ToG2.

Language models can store vast factual knowledge, yet their ability to flexibly use this knowledge for downstream tasks (e.g., via instruction finetuning) remains questionable. This paper investigates four fundamental knowledge manipulation tasks: \textbf{retrieval} (e.g., "What is person A's attribute X?"), \textbf{classification} (e.g., "Is A's attribute X even or odd?"), \textbf{comparison} (e.g., "Is A greater than B in attribute X?"), and \textbf{inverse search} (e.g., "Which person's attribute X equals T?"). We show that language models excel in knowledge retrieval but struggle even in the simplest classification or comparison tasks unless Chain of Thoughts (CoTs) are employed during both training and inference. Moreover, their performance in inverse knowledge search is virtually 0\%, regardless of the prompts. Our primary contribution is a \emph{controlled, synthetic experiment} that confirms these weaknesses are \emph{inherent} to language models: they cannot efficiently manipulate knowledge from pre-training data, even when such knowledge is perfectly stored in the models, despite adequate training and sufficient model size. Our findings also apply to modern pretrained language models such as GPT-4, thus giving rise to many Turing tests to distinguish Humans from contemporary AIs.

Recommendation systems predominantly utilize two-tower architectures, which evaluate user-item rankings through the inner product of their respective embeddings. However, one key limitation of two-tower models is that they learn a pair-agnostic representation of users and items. In contrast, pair-wise representations either scale poorly due to their quadratic complexity or are too restrictive on the candidate pairs to rank. To address these issues, we introduce Context-based Graph Neural Networks (ContextGNNs), a novel deep learning architecture for link prediction in recommendation systems. The method employs a pair-wise representation technique for familiar items situated within a user's local subgraph, while leveraging two-tower representations to facilitate the recommendation of exploratory items. A final network then predicts how to fuse both pair-wise and two-tower recommendations into a single ranking of items. We demonstrate that ContextGNN is able to adapt to different data characteristics and outperforms existing methods, both traditional and GNN-based, on a diverse set of practical recommendation tasks, improving performance by 20\% on average.

Graph Neural Networks (GNNs) have achieved remarkable success in various graph-based learning tasks. While their performance is often attributed to the powerful neighborhood aggregation mechanism, recent studies suggest that other components such as non-linear layers may also significantly affecting how GNNs process the input graph data in the spectral domain. Such evidence challenges the prevalent opinion that neighborhood aggregation mechanisms dominate the behavioral characteristics of GNNs in the spectral domain. To demystify such a conflict, this paper introduces a comprehensive benchmark to measure and evaluate GNNs' capability in capturing and leveraging the information encoded in different frequency components of the input graph data. Specifically, we first conduct an exploratory study demonstrating that GNNs can flexibly yield outputs with diverse frequency components even when certain frequencies are absent or filtered out from the input graph data. We then formulate a novel research problem of measuring and benchmarking the performance of GNNs from a spectral perspective. To take an initial step towards a comprehensive benchmark, we design an evaluation protocol supported by comprehensive theoretical analysis. Finally, we introduce a comprehensive benchmark on real-world datasets, revealing insights that challenge prevalent opinions from a spectral perspective. We believe that our findings will open new avenues for future advancements in this area. Our implementations can be found at: https://github.com/yushundong/Spectral-benchmark.

Graph-language models (GLMs) have demonstrated great potential in graph-based semi-supervised learning. A typical GLM consists of two key stages: graph generation and text embedding, which are usually implemented by inferring a latent graph and finetuning a language model (LM), respectively. However, the former often relies on artificial assumptions about the underlying edge distribution, while the latter requires extensive data annotations. To tackle these challenges, this paper introduces a novel GLM that integrates graph generation and text embedding within a unified framework. Specifically, for graph generation, we leverage an inherent characteristic of real edge distribution—the scale-free property—as a structural prior. We unexpectedly find that this natural property can be effectively approximated by a simple k-nearest neighbor (KNN) graph. For text embedding, we develop a graph-based pseudo-labeler that utilizes scale-free graphs to provide complementary supervision for improved LM finetuning. Extensive experiments on representative datasets validate our findings on the scale-free structural approximation of KNN graphs and demonstrate the effectiveness of integrating graph generation and text embedding with a real structural prior. Our code is available at https://github.com/Jianglin954/SFGL.

Diffusion models have recently emerged as a new powerful machinery for generative artificial intelligence on graphs, with applications ranging from drug design to knowledge discovery. However, despite their high potential, most, if not all, existing graph diffusion models are limited in their ability to holistically describe the intrinsic higher-order topological graph properties, which obstructs model generalizability and adoption for downstream tasks. We address this fundamental challenge and extract the latent salient topological graph descriptors at different resolutions by leveraging zigzag persistence. We develop a new computationally efficient topological summary, zigzag spaghetti (ZS), which delivers the most inherent topological properties simultaneously over a sequence of graphs at multiple resolutions. We derive theoretical stability guarantees of ZS and present the first attempt to integrate dynamic topological information into graph diffusion models. Our extensive experiments on graph classification and prediction tasks suggest that ZS has a high promise not only to enhance performance of graph diffusion models, with gains up 10\%, but also to substantially booster model robustness.

Large language models (LLMs) can give out erroneous answers to factually rooted questions either as a result of undesired training outcomes or simply because the world has moved on after a certain knowledge cutoff date. Under such scenarios, *knowledge editing* often comes to the rescue by delivering efficient patches for such erroneous answers without significantly altering the rest, where many editing methods have seen reasonable success when the editing targets are simple and direct (e.g., *``what club does Lionel Messi currently play for?''*). However, knowledge fragments like this are often deeply intertwined in the real world, making effectively propagating the editing effect to non-directly related questions a practical challenge (to entertain an extreme example: [*"What car did the wife of the owner of the club that Messi currently plays for used to get to school in the 80s?"*](youtube.com/watch?v=DbwiHC1Fu-E\&t=132s)). Prior arts have coined this task as *multi-hop knowledge editing* with the most popular dataset being MQuAKE, serving as the sole evaluation benchmark for many later proposed editing methods due to the expensive nature of constructing knowledge editing datasets at scale. In this work, we reveal that **up to 33\% or 76\% of \mquake{}'s questions and ground truth labels are, in fact, corrupted in various fashions due to some unintentional clerical or procedural oversights**. Our work provides a detailed audit of MQuAKE's error pattern and a comprehensive fix without sacrificing its dataset capacity. Additionally, we benchmarked almost all proposed MQuAKE-evaluated editing methods on our post-fix dataset, **MQuAKE-Remastered**. We observe that many methods try to overfit the original MQuAKE by exploiting some dataset idiosyncrasies of MQuAKE. We provide a guideline on how to approach such datasets faithfully and show that a simple, minimally invasive approach — **GWalk** — can offer beyond SOTA editing performance without such exploitation. The MQuAKE-Remastered datasets and utilities are available at [huggingface.co/datasets/henryzhongsc/MQuAKE-Remastered](https://huggingface.co/datasets/henryzhongsc/MQuAKE-Remastered) and [github.com/henryzhongsc/MQuAKE-Remastered](https://github.com/henryzhongsc/MQuAKE-Remastered), respectively.

Uniform expressivity guarantees that a Graph Neural Network (GNN) can express a query without the parameters depending on the size of the input graphs. This property is desirable in applications in order to have number of trainable parameters that is independent of the size of the input graphs. Uniform expressivity of the two variable guarded fragment (GC2) of first order logic is a well-celebrated result for Rectified Linear Unit (ReLU) GNNs [Barcelo &. Al, 2020]. In this article, we prove that uniform expressivity of GC2 queries is not possible for GNNs with a wide class of Pfaffian activation functions (including the sigmoid and $\tanh$), answering a question formulated by [Grohe, 2021]. We also show that despite these limitations, many of those GNNs can still efficiently express GC2 queries in a way that the number of parameters remains logarithmic on the maximal degree of the input graphs. Furthermore, we demonstrate that a log-log dependency on the degree is achievable for a certain choice of activation function. This shows that uniform expressivity can be successfully relaxed by covering large graphs appearing in practical applications. Our experiments illustrates that our theoretical estimates hold in practice.

Recent point-based object completion methods have demonstrated the ability to accurately recover the missing geometry of partially observed objects. However, these approaches are not well-suited for completing objects within a scene, as they do not consider known scene constraints (e.g., other observed surfaces) in their completions and further expect the partial input to be in a canonical coordinate system, which does not hold for objects within scenes. While instance scene completion methods have been proposed for completing objects within a scene, they lag behind point-based object completion methods in terms of object completion quality and still do not consider known scene constraints during completion. To overcome these limitations, we propose a point cloud-based instance completion model that can robustly complete objects at arbitrary scales and pose in the scene. To enable reasoning at the scene level, we introduce a sparse set of scene constraints represented as point clouds and integrate them into our completion model via a cross-attention mechanism. To evaluate the instance scene completion task on indoor scenes, we further build a new dataset called ScanWCF, which contains labeled partial scans as well as aligned ground truth scene completions that are watertight and collision-free. Through several experiments, we demonstrate that our method achieves improved fidelity to partial scans, higher completion quality, and greater plausibility over existing state-of-the-art methods.

Many works on graph neural networks (GNNs) focus on graph topologies and analyze graph-related operations to enhance performance on tasks such as node classification. In this paper, we propose to understand GNNs based on a feature-centric approach. Our main idea is to treat the features of nodes from each label class as a whole, from which we can identify the centroid. The convex hull of these centroids forms a simplex called the feature centroid simplex, where a simplex is a high-dimensional generalization of a triangle. We borrow ideas from coarse geometry to analyze the geometric properties of the feature centroid simplex by comparing them with basic geometric models, such as regular simplexes and degenerate simplexes. Such a simplex provides a simple platform to understand graph-based feature aggregation, including phenomena such as heterophily, oversmoothing, and feature re-shuffling. Based on the theory, we also identify simple and useful tricks for the node classification task.

As Graph Neural Networks (GNNs) become more pervasive, it becomes paramount to build reliable tools for explaining their predictions. A core desideratum is that explanations are *faithful*, i.e., that they portray an accurate picture of the GNN's reasoning process. However, a number of different faithfulness metrics exist, begging the question of what is faithfulness exactly and how to achieve it. We make three key contributions. We begin by showing that *existing metrics are not interchangeable* -- i.e., explanations attaining high faithfulness according to one metric may be unfaithful according to others -- and can *systematically ignore important properties of explanations*. We proceed to show that, surprisingly, *optimizing for faithfulness is not always a sensible design goal*. Specifically, we prove that for injective regular GNN architectures, perfectly faithful explanations are completely uninformative. This does not apply to modular GNNs, such as self-explainable and domain-invariant architectures, prompting us to study the relationship between architectural choices and faithfulness. Finally, we show that *faithfulness is tightly linked to out-of-distribution generalization*, in that simply ensuring that a GNN can correctly recognize the domain-invariant subgraph, as prescribed by the literature, does not guarantee that it is invariant unless this subgraph is also faithful. All our code can be found in the supplementary material.

Dynamic graphs capture evolving interactions between entities, such as in social networks, online learning platforms, and crowdsourcing projects. For dynamic graph modeling, dynamic graph neural networks (DGNNs) have emerged as a mainstream technique. However, they are generally pre-trained on the link prediction task, leaving a significant gap from the objectives of downstream tasks such as node classification. To bridge the gap, prompt-based learning has gained traction on graphs, but most existing efforts focus on static graphs, neglecting the evolution of dynamic graphs. In this paper, we propose DyGPrompt, a novel pre-training and prompt learning framework for dynamic graph modeling. First, we design dual prompts to address the gap in both task objectives and temporal variations across pre-training and downstream tasks. Second, we recognize that node and time patterns often characterize each other, and propose dual condition-nets to model the evolving node-time patterns in downstream tasks. Finally, we thoroughly evaluate and analyze DyGPrompt through extensive experiments on four public datasets.

This paper considers an important Graph Anomaly Detection (GAD) task, namely open-set GAD, which aims to train a detection model using a small number of normal and anomaly nodes (referred to as *seen anomalies*) to detect both seen anomalies and *unseen anomalies* (*i.e*., anomalies that cannot be illustrated the training anomalies). Those labelled training data provide crucial prior knowledge about abnormalities for GAD models, enabling substantially reduced detection errors. However, current supervised GAD methods tend to over-emphasise fitting the seen anomalies, leading to many errors of detecting the unseen anomalies as normal nodes. Further, existing open-set AD models were introduced to handle Euclidean data, failing to effectively capture discriminative features from graph structure and node attributes for GAD. In this work, we propose a novel open-set GAD approach, namely $\underline{n}ormal$ $\underline{s}tructure$ $\underline{reg}ularisation$ (**NSReg**), to achieve generalised detection ability to unseen anomalies, while maintaining its effectiveness on detecting seen anomalies. The key idea in NSReg is to introduce a regularisation term that enforces the learning of compact, semantically-rich representations of normal nodes based on their structural relations to other nodes. When being optimised with supervised anomaly detection losses, the regularisation term helps incorporate strong normality into the modelling, and thus, it effectively avoids over-fitting the seen anomalies and learns a better normality decision boundary, largely reducing the false negatives of detecting unseen anomalies as normal. Extensive empirical results on seven real-world datasets show that NSReg significantly outperforms state-of-the-art competing methods by at least 14% AUC-ROC on the unseen anomaly classes and by 10% AUC-ROC on all anomaly classes. Code and datasets are available at https://github.com/mala-lab/NSReg.

Message-passing graph neural networks (GNNs) excel at capturing local relationships but struggle with long-range dependencies in graphs. In contrast, graph transformers (GTs) enable global information exchange but often oversimplify the graph structure by representing graphs as sets of fixed-length vectors. This work introduces a novel architecture that overcomes the shortcomings of both approaches by combining the long-range information of random walks with local message passing. By treating random walks as sequences, our architecture leverages recent advances in sequence models to effectively capture long-range dependencies within these walks. Based on this concept, we propose a framework that offers (1) more expressive graph representations through random walk sequences, (2) the ability to utilize any sequence model for capturing long-range dependencies, and (3) the flexibility by integrating various GNN and GT architectures. Our experimental evaluations demonstrate that our approach achieves competitive performance on 19 graph and node benchmark datasets, notably outperforming existing methods by up to 13\% on the PascalVoc-SP and COCO-SP datasets. Code: https://github.com/BorgwardtLab/NeuralWalker

The performance differential of large language models (LLM) between languages hinders their effective deployment in many regions, inhibiting the potential economic and societal value of generative AI tools in many communities. However, the development of functional LLMs in many languages (i.e., multilingual LLMs) is bottlenecked by the lack of high-quality evaluation resources in languages other than English. Moreover, current practices in multilingual benchmark construction often translate English resources, ignoring the regional and cultural knowledge of the environments in which multilingual systems would be used. In this work, we construct an evaluation suite of 197,243 QA pairs from local exam sources to measure the capabilities of multilingual LLMs in a variety of regional contexts. Our novel resource, INCLUDE, is a comprehensive knowledge- and reasoning-centric benchmark across 44 written languages that evaluates multilingual LLMs for performance in the actual language environments where they would be deployed.

Graph Neural Networks (GNNs) traditionally employ a message-passing mechanism that resembles diffusion over undirected graphs, which often leads to homogenization of node features and reduced discriminative power in tasks such as node classification. Our key insight for addressing this limitation is to assign fuzzy edge directions---that can vary continuously from node $i$ pointing to node $j$ to vice versa---to the edges of a graph so that features can preferentially flow in one direction between nodes to enable long-range information transmission across the graph. We also introduce a novel complex-valued Laplacian for directed graphs with fuzzy edges where the real and imaginary parts represent information flow in opposite directions. Using this Laplacian, we propose a general framework, called Continuous Edge Direction (CoED) GNN, for learning on graphs with fuzzy edges and prove its expressivity limits using a generalization of the Weisfeiler-Leman (WL) graph isomorphism test for directed graphs with fuzzy edges. Our architecture aggregates neighbor features scaled by the learned edge directions and processes the aggregated messages from in-neighbors and out-neighbors separately alongside the self-features of the nodes. Since continuous edge directions are differentiable, they can be learned jointly with the GNN weights via gradient-based optimization. CoED GNN is particularly well-suited for graph ensemble data where the graph structure remains fixed but multiple realizations of node features are available, such as in gene regulatory networks, web connectivity graphs, and power grids. We demonstrate through extensive experiments on both synthetic and real graph ensemble datasets that learning continuous edge directions significantly improves performance both for undirected and directed graphs compared with existing methods.

Residual connections and normalization layers have become standard design choices for graph neural networks (GNNs), and were proposed as solutions to the mitigate the oversmoothing problem in GNNs. However, how exactly these methods help alleviate the oversmoothing problem from a theoretical perspective is not well understood. In this work, we provide a formal and precise characterization of (linearized) GNNs with residual connections and normalization layers. We establish that (a) for residual connections, the incorporation of the initial features at each layer can prevent the signal from becoming too smooth, and determines the subspace of possible node representations; (b) batch normalization prevents a complete collapse of the output embedding space to a one-dimensional subspace through the individual rescaling of each column of the feature matrix. This results in the convergence of node representations to the top-k eigenspace of the message-passing operator; (c) moreover, we show that the centering step of a normalization layer — which can be understood as a projection — alters the graph signal in message-passing in such a way that relevant information can become harder to extract. Building on the last theoretical insight, we introduce GraphNormv2, a novel and principled normalization layer. GraphNormv2 features a learnable centering step designed to preserve the integrity of the original graph signal. Experimental results corroborate the effectiveness of our method, demonstrating improved performance across various GNN architectures and tasks.

Dynamic graphs provide a flexible data abstraction for modelling many sorts of real-world systems, such as transport, trade, and social networks. Graph neural networks (GNNs) are powerful tools allowing for different kinds of prediction and inference on these systems, but getting a handle on uncertainty, especially in dynamic settings, is a challenging problem. In this work we propose to use a dynamic graph representation known in the tensor literature as the unfolding, to achieve valid prediction sets via conformal prediction. This representation, a simple graph, can be input to any standard GNN and does not require any modification to existing GNN architectures or conformal prediction routines. One of our key contributions is a careful mathematical consideration of the different inference scenarios which can arise in a dynamic graph modelling context. For a range of practically relevant cases, we obtain valid prediction sets with almost no assumptions, even dispensing with exchangeability. In a more challenging scenario, which we call the semi-inductive regime, we achieve valid prediction under stronger assumptions, akin to stationarity. We provide real data examples demonstrating validity, showing improved accuracy over baselines, and sign-posting different failure modes which can occur when those assumptions are violated.