Work

lncRNA localization and feature interpretability analysis

Year: 2024

Type: article

Abstract: Subcellular localization is crucial for understanding the functions and regulatory mechanisms of biomolecules. Long non-coding RNAs (lncRNAs) have diverse roles in cellular processes, and their localization within specific subcellular compartments provides insights into their biological functions and implications in health and disease. The nucleolus and nucleoplasm are key hubs for RNA metabolism and cellular regulation. We developed a model, LncDNN, for identifying the localization of lncRNAs in the nucleolus and nucleoplasm. LncDNN uses three different encoding schemes and employs Shapley Additive Explanations for feature analysis and selection. The results show that LncDNN is more accurate than other models. Additionally, an interpretable analysis of the features influencing the model was conducted. LncDNN is applicable for identifying the localization of lncRNA in the nucleolus and nucleoplasm, aiding in the understanding and in-depth study of related biological processes and functions.

Source: Molecular Therapy — Nucleic Acids

DOI: 10.1016/j.omtn.2024.102425

Authors: Jing Li, Ying Ju, Quan Zou, Fengming Ni

Institutions: University of Hong Kong, Xiamen University, University of Electronic Science and Technology of China, First Hospital of Jilin University

Language: English

Topic: Cancer-related molecular mechanisms research

Subfield: Cancer Research

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

Open Access status: gold

Estimated APC paid: $3,900

Funder: National Natural Science Foundation of China