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High-Dimensional Mediation Analysis Based on Additive Hazards Model for Survival Data
Mediation analysis has been extensively used to identify potential pathways between exposure and outcome. However, the analytical methods of high-dimensional mediation analysis for survival data are still yet to be promoted, especially for non-Cox model approaches. We propose a procedure including “...
Autores principales: | , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Frontiers Media S.A.
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8734376/ https://www.ncbi.nlm.nih.gov/pubmed/35003213 http://dx.doi.org/10.3389/fgene.2021.771932 |
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author | Cui, Yidan Luo, Chengwen Luo, Linghao Yu, Zhangsheng |
author_facet | Cui, Yidan Luo, Chengwen Luo, Linghao Yu, Zhangsheng |
author_sort | Cui, Yidan |
collection | PubMed |
description | Mediation analysis has been extensively used to identify potential pathways between exposure and outcome. However, the analytical methods of high-dimensional mediation analysis for survival data are still yet to be promoted, especially for non-Cox model approaches. We propose a procedure including “two-step” variable selection and indirect effect estimation for the additive hazards model with high-dimensional mediators. We first apply sure independence screening and smoothly clipped absolute deviation regularization to select mediators. Then we use the Sobel test and the BH method for indirect effect hypothesis testing. Simulation results demonstrate its good performance with a higher true-positive rate and accuracy, as well as a lower false-positive rate. We apply the proposed procedure to analyze DNA methylation markers mediating smoking and survival time of lung cancer patients in a TCGA (The Cancer Genome Atlas) cohort study. The real data application identifies four mediate CpGs, three of which are newly found. |
format | Online Article Text |
id | pubmed-8734376 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-87343762022-01-07 High-Dimensional Mediation Analysis Based on Additive Hazards Model for Survival Data Cui, Yidan Luo, Chengwen Luo, Linghao Yu, Zhangsheng Front Genet Genetics Mediation analysis has been extensively used to identify potential pathways between exposure and outcome. However, the analytical methods of high-dimensional mediation analysis for survival data are still yet to be promoted, especially for non-Cox model approaches. We propose a procedure including “two-step” variable selection and indirect effect estimation for the additive hazards model with high-dimensional mediators. We first apply sure independence screening and smoothly clipped absolute deviation regularization to select mediators. Then we use the Sobel test and the BH method for indirect effect hypothesis testing. Simulation results demonstrate its good performance with a higher true-positive rate and accuracy, as well as a lower false-positive rate. We apply the proposed procedure to analyze DNA methylation markers mediating smoking and survival time of lung cancer patients in a TCGA (The Cancer Genome Atlas) cohort study. The real data application identifies four mediate CpGs, three of which are newly found. Frontiers Media S.A. 2021-12-23 /pmc/articles/PMC8734376/ /pubmed/35003213 http://dx.doi.org/10.3389/fgene.2021.771932 Text en Copyright © 2021 Cui, Luo, Luo and Yu. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. |
spellingShingle | Genetics Cui, Yidan Luo, Chengwen Luo, Linghao Yu, Zhangsheng High-Dimensional Mediation Analysis Based on Additive Hazards Model for Survival Data |
title | High-Dimensional Mediation Analysis Based on Additive Hazards Model for Survival Data |
title_full | High-Dimensional Mediation Analysis Based on Additive Hazards Model for Survival Data |
title_fullStr | High-Dimensional Mediation Analysis Based on Additive Hazards Model for Survival Data |
title_full_unstemmed | High-Dimensional Mediation Analysis Based on Additive Hazards Model for Survival Data |
title_short | High-Dimensional Mediation Analysis Based on Additive Hazards Model for Survival Data |
title_sort | high-dimensional mediation analysis based on additive hazards model for survival data |
topic | Genetics |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8734376/ https://www.ncbi.nlm.nih.gov/pubmed/35003213 http://dx.doi.org/10.3389/fgene.2021.771932 |
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