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Multi-label feature selection (MFS) is a crucial dimensionality reduction technique aimed at identifying informative features associated with multiple labels. However, traditional centralized methods face significant challenges in privacy-sensitive and distributed settings, often neglecting label dependencies and suffering from low computational efficiency. To address these issues, we introduce a novel framework, Fed-MFSDHBCPSO—federated MFS via dual-layer hybrid breeding cooperative particle swarm optimization algorithm with manifold and sparsity regularization (DHBCPSO-MSR). Leveraging the federated learning paradigm, Fed-MFSDHBCPSO allows clients to perform local feature selection (FS) using DHBCPSO-MSR. Locally selected feature subsets are encrypted with differential privacy (DP) and transmitted to a central server, where they are securely aggregated and refined through secure multi-party computation (SMPC) until global convergence is achieved. Within each client, DHBCPSO-MSR employs a dual-layer FS strategy. The inner layer constructs sample and label similarity graphs, generates Laplacian matrices to capture the manifold structure between samples and labels, and applies
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