Penalized estimation of a class of single‐index varying‐coefficient models for integrative genomic analysis

• Published in: Biometrical journal Vol. 65; no. 1; pp. e2100139 - n/a
• Main Authors: Ng, Hoi Min, Jiang, Binyan, Wong, Kin Yau
• Format: Journal Article
• Language: English
• Published: Germany Wiley - VCH Verlag GmbH & Co. KGaA 01.01.2023
• Subjects: adaptive lasso; Cancer; Chronic illnesses; Computer Simulation; Genomic analysis; Genomics; group penalty; Heterogeneity; Humans; interaction; Neoplasms - genetics; Proportional Hazards Models; semiparametric models; splines; Statistical models; interaction; semiparametric models; adaptive lasso; group penalty; splines
• ISSN: 0323-3847; 1521-4036; 1521-4036
• DOI: 10.1002/bimj.202100139

Recent technological advances have made it possible to collect high‐dimensional genomic data along with clinical data on a large number of subjects. In the studies of chronic diseases such as cancer, it is of great interest to integrate clinical and genomic data to build a comprehensive understanding of the disease mechanisms. Despite extensive studies on integrative analysis, it remains an ongoing challenge to model the interaction effects between clinical and genomic variables, due to high dimensionality of the data and heterogeneity across data types. In this paper, we propose an integrative approach that models interaction effects using a single‐index varying‐coefficient model, where the effects of genomic features can be modified by clinical variables. We propose a penalized approach for separate selection of main and interaction effects. Notably, the proposed methods can be applied to right‐censored survival outcomes based on a Cox proportional hazards model. We demonstrate the advantages of the proposed methods through extensive simulation studies and provide applications to a motivating cancer genomic study.