A Scalable Pretraining Framework for Link Prediction with Efficient Adaptation

Link Prediction (LP) is a critical task in graph machine learning. While Graph Neural Networks (GNNs) have significantly advanced LP performance recently, existing methods face key challenges including limited supervision from sparse connectivity, sensitivity to initialization, and poor generalization under distribution shifts.

We explore pretraining as a solution to address these challenges. Unlike node classification, LP is inherently a pairwise task, which requires the integration of both node-and edge-level information. In this work, we present the first systematic study on the transferability of these distinct modules and propose a late fusion strategy to effectively combine their outputs for improved performance. To handle the diversity of pretraining data and avoid negative transfer, we introduce a Mixture-of-Experts (MoE) framework that captures distinct patterns in separate experts, facilitating seamless application of the pretrained model on diverse downstream datasets. For fast adaptation, we develop a parameter-efficient tuning strategy that allows the pretrained model to adapt to unseen datasets with minimal computational overhead. Experiments on 16 datasets across two domains demonstrate the effectiveness of our approach, achieving state-of-the-art performance on low-resource link prediction while obtaining competitive results compared to end-to-end trained methods, with over 10,000x lower computational overhead.

• Computing methodologies → Neural networks; • Theory of computation → Graph algorithms analysis.