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How to use frailtypack for validating failure-time surrogate endpoints using individual patient data from meta-analyses of randomized controlled trials

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  • Casimir Ledoux Sofeu
  • Virginie Rondeau

Abstract

Background and Objective: The use of valid surrogate endpoints can accelerate the development of phase III trials. Numerous validation methods have been proposed with the most popular used in a context of meta-analyses, based on a two-step analysis strategy. For two failure time endpoints, two association measures are usually considered, Kendall’s τ at individual level and adjusted R2 (adjR t r i a l 2) at trial level. However, adjR t r i a l 2 is not always available mainly due to model estimation constraints. More recently, we proposed a one-step validation method based on a joint frailty model, with the aim of reducing estimation issues and estimation bias on the surrogacy evaluation criteria. The model was quite robust with satisfactory results obtained in simulation studies. This study seeks to popularize this new surrogate endpoints validation approach by making the method available in a user-friendly R package. Methods: We provide numerous tools in the frailtypack R package, including more flexible functions, for the validation of candidate surrogate endpoints using data from multiple randomized clinical trials. Results: We implemented the surrogate threshold effect which is used in combination with R t r i a l 2 to make decisions concerning the validity of the surrogate endpoints. It is also possible thanks to frailtypack to predict the treatment effect on the true endpoint in a new trial using the treatment effect observed on the surrogate endpoint. The leave-one-out cross-validation is available for assessing the accuracy of the prediction using the joint surrogate model. Other tools include data generation, simulation study and graphic representations. We illustrate the use of the new functions with both real data and simulated data. Conclusion: This article proposes new attractive and well developed tools for validating failure time surrogate endpoints.

Suggested Citation

  • Casimir Ledoux Sofeu & Virginie Rondeau, 2020. "How to use frailtypack for validating failure-time surrogate endpoints using individual patient data from meta-analyses of randomized controlled trials," PLOS ONE, Public Library of Science, vol. 15(1), pages 1-25, January.
    • Handle: RePEc:plo:pone00:0228098
    DOI: 10.1371/journal.pone.0228098
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    References listed on IDEAS

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    1. Tomasz Burzykowski & Geert Molenberghs & Marc Buyse & Helena Geys & Didier Renard, 2001. "Validation of surrogate end points in multiple randomized clinical trials with failure time end points," Journal of the Royal Statistical Society Series C, Royal Statistical Society, vol. 50(4), pages 405-422.
    2. Shi, Qian & Renfro, Lindsay A. & Bot, Brian M. & Burzykowski, Tomasz & Buyse, Marc & Sargent, Daniel J., 2011. "Comparative assessment of trial-level surrogacy measures for candidate time-to-event surrogate endpoints in clinical trials," Computational Statistics & Data Analysis, Elsevier, vol. 55(9), pages 2748-2757, September.
    3. Ariel Alonso & Geert Molenberghs, 2007. "Surrogate Marker Evaluation from an Information Theory Perspective," Biometrics, The International Biometric Society, vol. 63(1), pages 180-186, March.
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