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Epigenome‐wide three‐way interaction study identifies a complex pattern between TRIM27, KIAA0226, and smoking associated with overall survival of early‐stage NSCLC
The interaction between DNA methylation of tripartite motif containing 27 (cg05293407 (TRIM27) ) and smoking has previously been identified to reveal histologically heterogeneous effects of TRIM27 DNA methylation on early‐stage non‐small‐cell lung cancer (NSCLC) survival. However, to understand the...
Autores principales: | , , , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
John Wiley and Sons Inc.
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8807353/ https://www.ncbi.nlm.nih.gov/pubmed/34932879 http://dx.doi.org/10.1002/1878-0261.13167 |
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author | Ji, Xinyu Lin, Lijuan Fan, Juanjuan Li, Yi Wei, Yongyue Shen, Sipeng Su, Li Shafer, Andrea Bjaanæs, Maria Moksnes Karlsson, Anna Planck, Maria Staaf, Johan Helland, Åslaug Esteller, Manel Zhang, Ruyang Chen, Feng Christiani, David C. |
author_facet | Ji, Xinyu Lin, Lijuan Fan, Juanjuan Li, Yi Wei, Yongyue Shen, Sipeng Su, Li Shafer, Andrea Bjaanæs, Maria Moksnes Karlsson, Anna Planck, Maria Staaf, Johan Helland, Åslaug Esteller, Manel Zhang, Ruyang Chen, Feng Christiani, David C. |
author_sort | Ji, Xinyu |
collection | PubMed |
description | The interaction between DNA methylation of tripartite motif containing 27 (cg05293407 (TRIM27) ) and smoking has previously been identified to reveal histologically heterogeneous effects of TRIM27 DNA methylation on early‐stage non‐small‐cell lung cancer (NSCLC) survival. However, to understand the complex mechanisms underlying NSCLC progression, we searched three‐way interactions. A two‐phase study was adopted to identify three‐way interactions in the form of pack‐year of smoking (number of cigarettes smoked per day × number of years smoked) × cg05293407 (TRIM27) × epigenome‐wide DNA methylation CpG probe. Two CpG probes were identified with FDR‐q ≤ 0.05 in the discovery phase and P ≤ 0.05 in the validation phase: cg00060500 (KIAA0226) and cg17479956 (EXT2) . Compared to a prediction model with only clinical information, the model added 42 significant three‐way interactions using a looser criterion (discovery: FDR‐q ≤ 0.10, validation: P ≤ 0.05) had substantially improved the area under the receiver operating characteristic curve (AUC) of the prognostic prediction model for both 3‐year and 5‐year survival. Our research identified the complex interaction effects among multiple environment and epigenetic factors, and provided therapeutic target for NSCLC patients. |
format | Online Article Text |
id | pubmed-8807353 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | John Wiley and Sons Inc. |
record_format | MEDLINE/PubMed |
spelling | pubmed-88073532022-02-04 Epigenome‐wide three‐way interaction study identifies a complex pattern between TRIM27, KIAA0226, and smoking associated with overall survival of early‐stage NSCLC Ji, Xinyu Lin, Lijuan Fan, Juanjuan Li, Yi Wei, Yongyue Shen, Sipeng Su, Li Shafer, Andrea Bjaanæs, Maria Moksnes Karlsson, Anna Planck, Maria Staaf, Johan Helland, Åslaug Esteller, Manel Zhang, Ruyang Chen, Feng Christiani, David C. Mol Oncol Research Articles The interaction between DNA methylation of tripartite motif containing 27 (cg05293407 (TRIM27) ) and smoking has previously been identified to reveal histologically heterogeneous effects of TRIM27 DNA methylation on early‐stage non‐small‐cell lung cancer (NSCLC) survival. However, to understand the complex mechanisms underlying NSCLC progression, we searched three‐way interactions. A two‐phase study was adopted to identify three‐way interactions in the form of pack‐year of smoking (number of cigarettes smoked per day × number of years smoked) × cg05293407 (TRIM27) × epigenome‐wide DNA methylation CpG probe. Two CpG probes were identified with FDR‐q ≤ 0.05 in the discovery phase and P ≤ 0.05 in the validation phase: cg00060500 (KIAA0226) and cg17479956 (EXT2) . Compared to a prediction model with only clinical information, the model added 42 significant three‐way interactions using a looser criterion (discovery: FDR‐q ≤ 0.10, validation: P ≤ 0.05) had substantially improved the area under the receiver operating characteristic curve (AUC) of the prognostic prediction model for both 3‐year and 5‐year survival. Our research identified the complex interaction effects among multiple environment and epigenetic factors, and provided therapeutic target for NSCLC patients. John Wiley and Sons Inc. 2022-01-07 2022-02 /pmc/articles/PMC8807353/ /pubmed/34932879 http://dx.doi.org/10.1002/1878-0261.13167 Text en © 2021 The Authors. Molecular Oncology published by John Wiley & Sons Ltd on behalf of Federation of European Biochemical Societies. https://creativecommons.org/licenses/by/4.0/This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Research Articles Ji, Xinyu Lin, Lijuan Fan, Juanjuan Li, Yi Wei, Yongyue Shen, Sipeng Su, Li Shafer, Andrea Bjaanæs, Maria Moksnes Karlsson, Anna Planck, Maria Staaf, Johan Helland, Åslaug Esteller, Manel Zhang, Ruyang Chen, Feng Christiani, David C. Epigenome‐wide three‐way interaction study identifies a complex pattern between TRIM27, KIAA0226, and smoking associated with overall survival of early‐stage NSCLC |
title | Epigenome‐wide three‐way interaction study identifies a complex pattern between TRIM27, KIAA0226, and smoking associated with overall survival of early‐stage NSCLC |
title_full | Epigenome‐wide three‐way interaction study identifies a complex pattern between TRIM27, KIAA0226, and smoking associated with overall survival of early‐stage NSCLC |
title_fullStr | Epigenome‐wide three‐way interaction study identifies a complex pattern between TRIM27, KIAA0226, and smoking associated with overall survival of early‐stage NSCLC |
title_full_unstemmed | Epigenome‐wide three‐way interaction study identifies a complex pattern between TRIM27, KIAA0226, and smoking associated with overall survival of early‐stage NSCLC |
title_short | Epigenome‐wide three‐way interaction study identifies a complex pattern between TRIM27, KIAA0226, and smoking associated with overall survival of early‐stage NSCLC |
title_sort | epigenome‐wide three‐way interaction study identifies a complex pattern between trim27, kiaa0226, and smoking associated with overall survival of early‐stage nsclc |
topic | Research Articles |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8807353/ https://www.ncbi.nlm.nih.gov/pubmed/34932879 http://dx.doi.org/10.1002/1878-0261.13167 |
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