Literature DB >> 30612519

Nonparametric competing risks analysis using Bayesian Additive Regression Trees.

Rodney Sparapani1, Brent R Logan1, Robert E McCulloch2, Purushottam W Laud1.   

Abstract

Many time-to-event studies are complicated by the presence of competing risks. Such data are often analyzed using Cox models for the cause-specific hazard function or Fine and Gray models for the subdistribution hazard. In practice, regression relationships in competing risks data are often complex and may include nonlinear functions of covariates, interactions, high-dimensional parameter spaces and nonproportional cause-specific, or subdistribution, hazards. Model misspecification can lead to poor predictive performance. To address these issues, we propose a novel approach: flexible prediction modeling of competing risks data using Bayesian Additive Regression Trees (BART). We study the simulation performance in two-sample scenarios as well as a complex regression setting, and benchmark its performance against standard regression techniques as well as random survival forests. We illustrate the use of the proposed method on a recently published study of patients undergoing hematopoietic stem cell transplantation.

Entities:  

Keywords:  Cumulative incidence; graft-versus-host disease (GVHD); hematopoietic stem cell transplant; machine learning; nonproportional; treatment heterogeneity; variable selection

Year:  2019        PMID: 30612519      PMCID: PMC6954340          DOI: 10.1177/0962280218822140

Source DB:  PubMed          Journal:  Stat Methods Med Res        ISSN: 0962-2802            Impact factor:   3.021


  14 in total

1.  Group and within-group variable selection for competing risks data.

Authors:  Kwang Woo Ahn; Anjishnu Banerjee; Natasha Sahr; Soyoung Kim
Journal:  Lifetime Data Anal       Date:  2017-08-04       Impact factor: 1.588

2.  Regression modeling of competing risks data based on pseudovalues of the cumulative incidence function.

Authors:  John P Klein; Per Kragh Andersen
Journal:  Biometrics       Date:  2005-03       Impact factor: 2.571

3.  Boosting proportional hazards models using smoothing splines, with applications to high-dimensional microarray data.

Authors:  Hongzhe Li; Yihui Luan
Journal:  Bioinformatics       Date:  2005-02-15       Impact factor: 6.937

4.  The lasso method for variable selection in the Cox model.

Authors:  R Tibshirani
Journal:  Stat Med       Date:  1997-02-28       Impact factor: 2.373

5.  Random survival forests for competing risks.

Authors:  Hemant Ishwaran; Thomas A Gerds; Udaya B Kogalur; Richard D Moore; Stephen J Gange; Bryan M Lau
Journal:  Biostatistics       Date:  2014-04-11       Impact factor: 5.899

6.  Penalized variable selection in competing risks regression.

Authors:  Zhixuan Fu; Chirag R Parikh; Bingqing Zhou
Journal:  Lifetime Data Anal       Date:  2016-03-26       Impact factor: 1.588

7.  The analysis of failure times in the presence of competing risks.

Authors:  R L Prentice; J D Kalbfleisch; A V Peterson; N Flournoy; V T Farewell; N E Breslow
Journal:  Biometrics       Date:  1978-12       Impact factor: 2.571

8.  Clustering threshold gradient descent regularization: with applications to microarray studies.

Authors:  Shuangge Ma; Jian Huang
Journal:  Bioinformatics       Date:  2006-12-20       Impact factor: 6.937

9.  Bone marrow or peripheral blood for reduced-intensity conditioning unrelated donor transplantation.

Authors:  Mary Eapen; Brent R Logan; Mary M Horowitz; Xiaobo Zhong; Miguel-Angel Perales; Stephanie J Lee; Vanderson Rocha; Robert J Soiffer; Richard E Champlin
Journal:  J Clin Oncol       Date:  2014-12-22       Impact factor: 44.544

10.  The use of group sequential designs with common competing risks tests.

Authors:  Brent R Logan; Mei-Jie Zhang
Journal:  Stat Med       Date:  2012-09-04       Impact factor: 2.373

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  3 in total

1.  Bayesian additive regression trees and the General BART model.

Authors:  Yaoyuan Vincent Tan; Jason Roy
Journal:  Stat Med       Date:  2019-08-28       Impact factor: 2.373

2.  Optimal Donor Selection for Hematopoietic Cell Transplantation Using Bayesian Machine Learning.

Authors:  Brent R Logan; Martin J Maiers; Rodney A Sparapani; Purushottam W Laud; Stephen R Spellman; Robert E McCulloch; Bronwen E Shaw
Journal:  JCO Clin Cancer Inform       Date:  2021-05

Review 3.  Biomarkers for Allogeneic HCT Outcomes.

Authors:  Djamilatou Adom; Courtney Rowan; Titilayo Adeniyan; Jinfeng Yang; Sophie Paczesny
Journal:  Front Immunol       Date:  2020-04-21       Impact factor: 7.561

  3 in total

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