Predicting Clinical Outcomes in Glioblastoma: An Application of Topological and Functional Data Analysis

• Published in: Journal of the American Statistical Association 2020-07, Vol.115 (531), p.1139-1150
• Main Authors: Crawford, Lorin, Monod, Anthea, Chen, Andrew X., Mukherjee, Sayan, Rabadán, Raúl
• Format: Article
• Language: English
• Subjects: Biology; Brain cancer; Cancer; Clinical outcomes; Data analysis; Euler characteristic; Functional data; Gene expression; Glioblastoma multiforme; Magnetic resonance imaging; Medical imaging; Medical materials; Medical prognosis; Regression analysis; Shape statistics; Statistical analysis; Statistical methods; Statistics; Topological data analysis; Topology; Tumors
• ISSN: 0162-1459; 1537-274X
• DOI: 10.1080/01621459.2019.1671198

Glioblastoma multiforme (GBM) is an aggressive form of human brain cancer that is under active study in the field of cancer biology. Its rapid progression and the relative time cost of obtaining molecular data make other readily available forms of data, such as images, an important resource for actionable measures in patients. Our goal is to use information given by medical images taken from GBM patients in statistical settings. To do this, we design a novel statistic-the smooth Euler characteristic transform (SECT)-that quantifies magnetic resonance images of tumors. Due to its well-defined inner product structure, the SECT can be used in a wider range of functional and nonparametric modeling approaches than other previously proposed topological summary statistics. When applied to a cohort of GBM patients, we find that the SECT is a better predictor of clinical outcomes than both existing tumor shape quantifications and common molecular assays. Specifically, we demonstrate that SECT features alone explain more of the variance in GBM patient survival than gene expression, volumetric features, and morphometric features. The main takeaways from our findings are thus 2-fold. First, they suggest that images contain valuable information that can play an important role in clinical prognosis and other medical decisions. Second, they show that the SECT is a viable tool for the broader study of medical imaging informatics. Supplementary materials for this article, including a standardized description of the materials available for reproducing the work, are available as an online supplement.