ERAlign: Energy-based Representation Alignment of GNNs and LLMs on Text-attributed Graphs
Authors: Xianlin Zeng, Fan Xia, Xiangyu Chen
Organizations: Postdoctoral Research Station at China RongTong Academy of Sciences Group Corporation Limited, Beijing, China · Duke University, Durham, NC, USA.
Text-attributed Graphs (TAGs) incorporate textual node attributes with graph structures to describe rich relational semantics. Recent efforts to integrate Graph Neural Networks (GNNs) and Large Language Models (LLMs) have shown promise for learning on TAGs, yet achieving well-aligned representations remains challenging. Prior studies largely rely on heuristics that perform coarse-grained matching. They lack sufficient constraints and ignore distributional alignment, leading to representation drift and limited generalization. Building on Energy-based Models (EBMs), we propose an Energy-based Representation Alignment (ERAlign) framework that projects GNN-encoded graph structure and LLM-derived text embeddings in a shared latent space to achieve distribution consistency. Concretely, layer-wise alignment is quantified by a distance metric and optimized via an EBM objective. By decreasing energy values, our framework yields well-aligned representations for downstream tasks. During training, we introduce Energy Discrepancy (ED) to avoid high sampling costs associated with intractable normalization. ED also carries theoretical guarantees of higher training efficiency and reduced energy landscape distortion. Empirical evaluations on eight TAG datasets demonstrate that ERAlign obtains state-of-the-art performance across varying levels of supervision and cross-task transfer scenarios.
Text-Attributed Graphs (TAGs), where each node is associated with text descriptions, are ubiquitous in real-world scenarios. They typically exhibit distinctive structure and domain-specific knowledge, motivating the development of a Graph Foundation Model (GFM) that generalizes across diverse graphs and tasks. Despite large efforts to integrate Large Language Models (LLMs) and Graph Neural Networks (GNNs) for TAGs, existing approaches suffer from decoupled architectures with two-stage alignment, limiting their synergistic potential. Even worse, existing methods assign out-of-vocabulary (OOV) tokens to graph nodes, leading to graph-specific semantics, token explosion, and incompatibility with task-oriented prompt templates, which hinders cross-graph and cross-task transferability. To address these challenges, we propose PromptGFM, a versatile GFM for TAGs grounded in graph vocabulary learning. PromptGFM comprises two key components: (1) Graph Understanding Module, which explicitly prompts LLMs to replicate the finest GNN workflow within the text space, facilitating seamless GNN-LLM integration and elegant graph-text alignment; (2) Graph Inference Module, which establishes a language-based graph vocabulary ensuring expressiveness, transferability, and scalability, enabling readable instructions for LLM fine-tuning. Extensive experiments demonstrate our superiority and transferability across diverse graphs and tasks. The code is available at this: https://github.com/agiresearch/PromptGFM.
LLM-as-Aligner has emerged as a prevalent pre-training paradigm for Text-Attributed Graphs(TAGS), aligning graph and text modalities into a shared embedding space via CLIP-style contrastive learning. While effective on individual downstream tasks, we observe severe catastrophic forgetting when such models are sequentially fine-tuned on streaming tasks. Although parameter-efficient fine-tuning alleviates forgetting to some extent, it remains insufficient to resolve task interference and ineffective knowledge transfer. In this work, we study graph continual learning for LLM-as-Aligner models on TAGs, with the goal of mitigating interference while promoting positive transfer across tasks. This setting introduces two fundamental challenges: (1) heterogeneous downstream tasks induce shifting optimization objectives, hindering unified fine-tuning; and (2) graph and text encoders exhibit different sensitivities to adaptation, making uncoordinated updates prone to misalignment. To address these challenges, we propose G2LoRA, a continual learning framework for TAGs. G2LoRA unifies node-, link-, and graph-level tasks under a single graph--text alignment objective, and enables consistent optimization across domain/class/task incremental modes. To reduce task interference while encouraging positive transfer, G2LoRA performs category-aware gradient projection in structured subspaces, resolving conflicting updates and enabling conditional backward transfer to balance forward and backward knowledge flow. To further prevent cross-modal drift, G2LoRA introduces gradient magnitude modulation to coordinate update rates between graph and text encoders. Extensive experiments on benchmark datasets demonstrate that G2LoRA consistently outperforms strong baselines across different backbone architectures, achieving superior continual performance and transferability.
Text-attributed graphs (TAGs), where each node carries a natural language description, require models to jointly reason over text and graph topology. Existing approaches often handle the two modalities separately: graph neural networks operate on shallow text features, while hybrids of LLMs and graphs use the language model mainly as a text encoder and delegate structure learning to a separate graph module. We propose method that unifies textual reasoning and graph message passing within a masked diffusion language model, a language model with bidirectional attention and generative decoding. For each graph instance, method linearises a sampled local neighbourhood into a token sequence and injects graph structure through a topology attention mask, which realises message passing over the graph. Because the diffusion language model can both interpret and generate text, the method adapts to different tasks simply by changing the prompt, supporting node classification, link prediction, and cross-dataset transfer with no target-specific fine-tuning. Experiments show that method outperforms graph neural networks, graph transformers, and LLM-based baselines on all three TAG benchmarks across two tasks, improving over the strongest baseline by up to 3.9 points.