Dual-GNN Multilevel Coarsening for Maximum Independent Set

Tianfeng Chen, Xianyue Li

The maximum independent set (MIS) problem is a fundamental NP-hard combinatorial optimization problem with applications in scheduling, resource allocation, and network analysis. Exact solvers can provide high-quality solutions or optimality certificates, but their computational cost grows rapidly with graph size, while hand-crafted heuristics improve scalability at the expense of guarantees. Learning-based methods offer an alternative by exploiting structural patterns across graph instances, yet directly predicting independent sets can make global coordination difficult on large graphs. We instead use learning to guide multilevel graph coarsening while retaining combinatorial search for final decision making. Our Dual-GNN Multilevel Coarsening framework uses a Partition GNN to score candidate contractions and a Representative GNN to select top-k local independent-set states for each final cluster. Experiments on Erdős--Rényi graphs with up to 2,000 vertices demonstrate a favorable quality--runtime trade-off. On 500-vertex instances with certified optima, our method achieves an average independent-set size of 19.20, corresponding to 99.5\% of the optimal value of 19.30, while…