Non-parametric individual treatment effect estimation for survival data with random forests

• Published in: Bioinformatics Vol. 36; no. 2; pp. 629 - 636
• Main Authors: Tabib, Sami, Larocque, Denis
• Format: Journal Article
• Language: English
• Published: England Oxford University Press 15.01.2020
• ISSN: 1367-4803; 1367-4811; 1460-2059; 1367-4811
• DOI: 10.1093/bioinformatics/btz602

Abstract Motivation Personalized medicine often relies on accurate estimation of a treatment effect for specific subjects. This estimation can be based on the subject’s baseline covariates but additional complications arise for a time-to-event response subject to censoring. In this paper, the treatment effect is measured as the difference between the mean survival time of a treated subject and the mean survival time of a control subject. We propose a new random forest method for estimating the individual treatment effect with survival data. The random forest is formed by individual trees built with a splitting rule specifically designed to partition the data according to the individual treatment effect. For a new subject, the forest provides a set of similar subjects from the training dataset that can be used to compute an estimation of the individual treatment effect with any adequate method. Results The merits of the proposed method are investigated with a simulation study where it is compared to numerous competitors, including recent state-of-the-art methods. The results indicate that the proposed method has a very good and stable performance to estimate the individual treatment effects. Two examples of application with a colon cancer data and breast cancer data show that the proposed method can detect a treatment effect in a sub-population even when the overall effect is small or nonexistent. Availability and implementation The authors are working on an R package implementing the proposed method and it will be available soon. In the meantime, the code can be obtained from the first author at sami.tabib@hec.ca. Supplementary information Supplementary data are available at Bioinformatics online.