Multiview Random Vector Functional Link Network for Predicting DNA-Binding Proteins

Abstract

The identification of DNA-binding proteins (DBPs) is a critical task due to their significant impact on various biological activities. Understanding the mechanisms underlying protein-DNA interactions is essential for elucidating various life activities. In recent years, machine learning-based models have been prominently utilized for DBP prediction. In this paper, to predict DBPs, we propose a novel framework termed a multiview random vector functional link (MvRVFL) network, which fuses neural network architecture with multiview learning. The proposed MvRVFL model combines the benefits of late and early fusion, allowing for distinct regularization parameters across different views while leveraging a closed-form solution to determine unknown parameters efficiently. The primal objective function incorporates a coupling term aimed at minimizing a composite of errors stemming from all views. From each of the three protein views of the DBP datasets, we extract five features. These features are then fused together by incorporating a hidden feature during the model training process. The performance of the proposed MvRVFL model on the DBP dataset surpasses that of baseline models, demonstrating its superior effectiveness. Furthermore, we extend our assessment to the UCI, KEEL, AwA, and Corel5k datasets, to establish the practicality of the proposed models. The consistency error bound, the generalization error bound, and empirical findings, coupled with rigorous statistical analyses, confirm the superior generalization capabilities of the MvRVFL model compared to the baseline models.