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Penalized regression calibration: A method for the prediction of survival outcomes using complex longitudinal and high-dimensional data
KTH, School of Engineering Sciences in Chemistry, Biotechnology and Health (CBH), Protein Science, Systems Biology.ORCID iD: 0000-0001-6990-1905
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2021 (English)In: Statistics in Medicine, ISSN 0277-6715, E-ISSN 1097-0258, Vol. 40, no 27, p. 6178-6196Article in journal (Refereed) Published
Abstract [en]

Longitudinal and high-dimensional measurements have become increasingly common in biomedical research. However, methods to predict survival outcomes using covariates that are both longitudinal and high-dimensional are currently missing. In this article, we propose penalized regression calibration (PRC), a method that can be employed to predict survival in such situations. PRC comprises three modeling steps: First, the trajectories described by the longitudinal predictors are flexibly modeled through the specification of multivariate mixed effects models. Second, subject-specific summaries of the longitudinal trajectories are derived from the fitted mixed models. Third, the time to event outcome is predicted using the subject-specific summaries as covariates in a penalized Cox model. To ensure a proper internal validation of the fitted PRC models, we furthermore develop a cluster bootstrap optimism correction procedure that allows to correct for the optimistic bias of apparent measures of predictiveness. PRC and the CBOCP are implemented in the R package pencal, available from CRAN. After studying the behavior of PRC via simulations, we conclude by illustrating an application of PRC to data from an observational study that involved patients affected by Duchenne muscular dystrophy, where the goal is predict time to loss of ambulation using longitudinal blood biomarkers.

Place, publisher, year, edition, pages
Wiley , 2021. Vol. 40, no 27, p. 6178-6196
Keywords [en]
Duchenne muscular dystrophy, high-dimensionality, longitudinal data analysis, optimism correction, penalized regression calibration, risk prediction modeling, survival analysis
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Pediatrics
Identifiers
URN: urn:nbn:se:kth:diva-311434DOI: 10.1002/sim.9178ISI: 000692115800001PubMedID: 34464990Scopus ID: 2-s2.0-85114785367OAI: oai:DiVA.org:kth-311434DiVA, id: diva2:1655979
Note

QC 20220504

Available from: 2022-05-04 Created: 2022-05-04 Last updated: 2022-06-25Bibliographically approved

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Al-Khalili Szigyarto, CristinaAyoglu, BurcuJohansson, Camilla

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