TAPE_selection: Organelle Proteins Classification With TAPE Feature Selection

Abstract

Proteins are the material foundation of life, and they are organic macromolecules that make up the basic organic matter of cells. Therefore, proteins can be considered as the main bearers of life activities. Proteins are important components that make up all cells and tissues in an organism. All critical elements of an organism require the participation of proteins, and the most important thing is that they are related to life phenomena. The transportation and localization of proteins within organelles is a complex and delicate process that involves multiple steps and mechanisms. Organelle proteins are an essential element in several biological processions. In this work, we proposed TAPE_selection methods to reduce the useless information of the Tasks Assessing Protein Embed-dings (TAPE) feature in some organelle proteins, which mainly include plant vacuole proteins (PVPs) and peroxidase ones. In order to reduce the useless information, we employed some feature selection Strategies, including the Chi-Squared Test, Minimum Redundancy Maximum Relevance(mRMR), and Neighborhood Components Analysis (NCA). With the selected feature, the Proper Orthogonal Decomposition (POD) and t-distributed Stochastic Neighbor Embedding (t-SNE) were employed to reduce the reconstructed feature scale.