Risk Prediction in Patients With Heart Failure With Preserved Ejection Fraction Using Gene Expression Data and Machine Learning

• Published in: Frontiers in genetics Vol. 12; p. 652315
• Main Authors: Zhou, Liye, Guo, Zhifei, Wang, Bijue, Wu, Yongqing, Li, Zhi, Yao, Hongmei, Fang, Ruiling, Yang, Haitao, Cao, Hongyan, Cui, Yuehua
• Format: Journal Article
• Language: English
• Published: Switzerland Frontiers Media S.A 22.03.2021
• Subjects: genetic algorithm; Genetics; heart failure with preserved ejection fraction; kernel partial least squares; machine learning; risk prediction; genetic algorithm; kernel partial least squares; heart failure with preserved ejection fraction; machine learning; risk prediction
• ISSN: 1664-8021; 1664-8021
• DOI: 10.3389/fgene.2021.652315

Heart failure with preserved ejection fraction (HFpEF) has become a major health issue because of its high mortality, high heterogeneity, and poor prognosis. Using genomic data to classify patients into different risk groups is a promising method to facilitate the identification of high-risk groups for further precision treatment. Here, we applied six machine learning models, namely kernel partial least squares with the genetic algorithm (GA-KPLS), the least absolute shrinkage and selection operator (LASSO), random forest, ridge regression, support vector machine, and the conventional logistic regression model, to predict HFpEF risk and to identify subgroups at high risk of death based on gene expression data. The model performance was evaluated using various criteria. Our analysis was focused on 149 HFpEF patients from the Framingham Heart Study cohort who were classified into good-outcome and poor-outcome groups based on their 3-year survival outcome. The results showed that the GA-KPLS model exhibited the best performance in predicting patient risk. We further identified 116 differentially expressed genes (DEGs) between the two groups, thus providing novel therapeutic targets for HFpEF. Additionally, the DEGs were enriched in Gene Ontology terms and Kyoto Encyclopedia of Genes and Genomes pathways related to HFpEF. The GA-KPLS-based HFpEF model is a powerful method for risk stratification of 3-year mortality in HFpEF patients.