Sagi Snir1, Matteo Pellegrini2. 1. Department of Evolutionary Biology, University of Haifa, Haifa, 3498838, Israel. 2. Deptartment of Molecular, Cell & Developmental Biology, University of California, Los Angeles, CA 90095, USA.
Abstract
AIM: DNA methylation has proven to be a remarkably accurate biomarker for human age, allowing the prediction of chronological age to within a couple of years. Recently, we proposed that the Universal PaceMaker (UPM), a flexible paradigm for modeling evolution, could be applied to epigenetic aging. Nevertheless, application to real data was restricted to small datasets for technical limitations. MATERIALS & METHODS: We partition the set of variables into to two subsets and optimize the likelihood function on each set separately. This yields an extremely efficient Conditional Expectation Maximization algorithm, alternating between the two sets while increasing the overall likelihood. RESULTS: Using the technique, we could reanalyze datasets of larger magnitude and show significant advantage to the UPM approach. CONCLUSION: The UPM more faithfully models epigenetic aging than the time linear approach while methylated sites accelerate and decelerate jointly.
AIM: DNA methylation has proven to be a remarkably accurate biomarker for human age, allowing the prediction of chronological age to within a couple of years. Recently, we proposed that the Universal PaceMaker (UPM), a flexible paradigm for modeling evolution, could be applied to epigenetic aging. Nevertheless, application to real data was restricted to small datasets for technical limitations. MATERIALS & METHODS: We partition the set of variables into to two subsets and optimize the likelihood function on each set separately. This yields an extremely efficient Conditional Expectation Maximization algorithm, alternating between the two sets while increasing the overall likelihood. RESULTS: Using the technique, we could reanalyze datasets of larger magnitude and show significant advantage to the UPM approach. CONCLUSION: The UPM more faithfully models epigenetic aging than the time linear approach while methylated sites accelerate and decelerate jointly.
Entities:
Keywords:
DNA methylation; conditional expectation maximization; universal pacemaker
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Authors: Gabriela M Pinho; Julien G A Martin; Colin Farrell; Amin Haghani; Joseph A Zoller; Joshua Zhang; Sagi Snir; Matteo Pellegrini; Robert K Wayne; Daniel T Blumstein; Steve Horvath Journal: Nat Ecol Evol Date: 2022-03-07 Impact factor: 19.100
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