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Elastic Net Models Based on DNA Copy Number Variations Predicts Clinical Features, Expression Signatures, and Mutations in Lung Adenocarcinoma
In the precision medicine of lung adenocarcinoma, the identification and prediction of tumor phenotypes for specific biomolecular events are still not studied in depth. Various earlier researches sheds light on the close correlation between genetic expression signatures and DNA copy number variation...
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/PMC8202527/ https://www.ncbi.nlm.nih.gov/pubmed/34135942 http://dx.doi.org/10.3389/fgene.2021.668040 |
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author | Xiang, Yi Zou, Xiaohuan Shi, Huaqiu Xu, Xueming Wu, Caixia Zhong, Wenjuan Wang, Jinfeng Zhou, Wenting Zeng, Xiaoli He, Miao Wang, Ying Huang, Li Wang, Xiangcai |
author_facet | Xiang, Yi Zou, Xiaohuan Shi, Huaqiu Xu, Xueming Wu, Caixia Zhong, Wenjuan Wang, Jinfeng Zhou, Wenting Zeng, Xiaoli He, Miao Wang, Ying Huang, Li Wang, Xiangcai |
author_sort | Xiang, Yi |
collection | PubMed |
description | In the precision medicine of lung adenocarcinoma, the identification and prediction of tumor phenotypes for specific biomolecular events are still not studied in depth. Various earlier researches sheds light on the close correlation between genetic expression signatures and DNA copy number variations (CNVs), for which analysis of CNVs provides valuable information about molecular and phenotypic changes in tumorigenesis. In this study, we propose a comprehensive analysis combining genome-wide association analysis and an Elastic Net Regression predictive model, focus on predicting the levels of many gene expression signatures in lung adenocarcinoma, based upon DNA copy number features alone. Additionally, we predicted many other key phenotypes, including clinical features (pathological stage), gene mutations, and protein expressions. These Elastic Net prediction methods can also be applied to other gene sets, thereby facilitating their use as biomarkers in monitoring therapy. |
format | Online Article Text |
id | pubmed-8202527 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-82025272021-06-15 Elastic Net Models Based on DNA Copy Number Variations Predicts Clinical Features, Expression Signatures, and Mutations in Lung Adenocarcinoma Xiang, Yi Zou, Xiaohuan Shi, Huaqiu Xu, Xueming Wu, Caixia Zhong, Wenjuan Wang, Jinfeng Zhou, Wenting Zeng, Xiaoli He, Miao Wang, Ying Huang, Li Wang, Xiangcai Front Genet Genetics In the precision medicine of lung adenocarcinoma, the identification and prediction of tumor phenotypes for specific biomolecular events are still not studied in depth. Various earlier researches sheds light on the close correlation between genetic expression signatures and DNA copy number variations (CNVs), for which analysis of CNVs provides valuable information about molecular and phenotypic changes in tumorigenesis. In this study, we propose a comprehensive analysis combining genome-wide association analysis and an Elastic Net Regression predictive model, focus on predicting the levels of many gene expression signatures in lung adenocarcinoma, based upon DNA copy number features alone. Additionally, we predicted many other key phenotypes, including clinical features (pathological stage), gene mutations, and protein expressions. These Elastic Net prediction methods can also be applied to other gene sets, thereby facilitating their use as biomarkers in monitoring therapy. Frontiers Media S.A. 2021-05-31 /pmc/articles/PMC8202527/ /pubmed/34135942 http://dx.doi.org/10.3389/fgene.2021.668040 Text en Copyright © 2021 Xiang, Zou, Shi, Xu, Wu, Zhong, Wang, Zhou, Zeng, He, Wang, Huang and Wang. 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 Xiang, Yi Zou, Xiaohuan Shi, Huaqiu Xu, Xueming Wu, Caixia Zhong, Wenjuan Wang, Jinfeng Zhou, Wenting Zeng, Xiaoli He, Miao Wang, Ying Huang, Li Wang, Xiangcai Elastic Net Models Based on DNA Copy Number Variations Predicts Clinical Features, Expression Signatures, and Mutations in Lung Adenocarcinoma |
title | Elastic Net Models Based on DNA Copy Number Variations Predicts Clinical Features, Expression Signatures, and Mutations in Lung Adenocarcinoma |
title_full | Elastic Net Models Based on DNA Copy Number Variations Predicts Clinical Features, Expression Signatures, and Mutations in Lung Adenocarcinoma |
title_fullStr | Elastic Net Models Based on DNA Copy Number Variations Predicts Clinical Features, Expression Signatures, and Mutations in Lung Adenocarcinoma |
title_full_unstemmed | Elastic Net Models Based on DNA Copy Number Variations Predicts Clinical Features, Expression Signatures, and Mutations in Lung Adenocarcinoma |
title_short | Elastic Net Models Based on DNA Copy Number Variations Predicts Clinical Features, Expression Signatures, and Mutations in Lung Adenocarcinoma |
title_sort | elastic net models based on dna copy number variations predicts clinical features, expression signatures, and mutations in lung adenocarcinoma |
topic | Genetics |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8202527/ https://www.ncbi.nlm.nih.gov/pubmed/34135942 http://dx.doi.org/10.3389/fgene.2021.668040 |
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