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A rare CHD5 haplotype and its interactions with environmental factors predicting hepatocellular carcinoma risk
BACKGROUND: CHD5 is a conventional tumour-suppressing gene in many tumours. The aim of this study was to determine whether CHD5 variants contribute to the risk of hepatocellular carcinoma (HCC). METHODS: Gene variants were identified using next-generation sequencing targeted on referenced mutations...
Autores principales: | , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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BioMed Central
2018
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6003142/ https://www.ncbi.nlm.nih.gov/pubmed/29907144 http://dx.doi.org/10.1186/s12885-018-4551-y |
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author | Xiao, Qin Chen, Lianzhou Luo, Haiqing Li, Hongmei Kong, Qingming Jiao, Fei Pang, Shifeng Zhang, Ming Lan, Feifei Fan, Wenguo Luo, Hui Tao, Tao Zhu, Xiao |
author_facet | Xiao, Qin Chen, Lianzhou Luo, Haiqing Li, Hongmei Kong, Qingming Jiao, Fei Pang, Shifeng Zhang, Ming Lan, Feifei Fan, Wenguo Luo, Hui Tao, Tao Zhu, Xiao |
author_sort | Xiao, Qin |
collection | PubMed |
description | BACKGROUND: CHD5 is a conventional tumour-suppressing gene in many tumours. The aim of this study was to determine whether CHD5 variants contribute to the risk of hepatocellular carcinoma (HCC). METHODS: Gene variants were identified using next-generation sequencing targeted on referenced mutations followed by TaqMan genotyping in two case-control studies. RESULTS: We discovered a rare variant (haplotype AG) in CHD5 (rs12564469-rs9434711) that was markedly associated with the risk of HCC in a Chinese population. A logistical regression model and permutation test confirmed the association. Indeed, the association quality increased in a gene dose-dependent manner as the number of samples increased. In the stratified analysis, this haplotype risk effect was statistically significant in a subgroup of alcohol drinkers. The false-positive report probability and multifactor dimensionality reduction further supported the finding. CONCLUSIONS: Our results suggest that the rare CHD5 gene haplotype and alcohol intake contribute to the risk of HCC. Our findings can be valuable to researchers of cancer precision medicine looking to improve diagnosis and treatment of HCC. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1186/s12885-018-4551-y) contains supplementary material, which is available to authorized users. |
format | Online Article Text |
id | pubmed-6003142 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-60031422018-07-06 A rare CHD5 haplotype and its interactions with environmental factors predicting hepatocellular carcinoma risk Xiao, Qin Chen, Lianzhou Luo, Haiqing Li, Hongmei Kong, Qingming Jiao, Fei Pang, Shifeng Zhang, Ming Lan, Feifei Fan, Wenguo Luo, Hui Tao, Tao Zhu, Xiao BMC Cancer Research Article BACKGROUND: CHD5 is a conventional tumour-suppressing gene in many tumours. The aim of this study was to determine whether CHD5 variants contribute to the risk of hepatocellular carcinoma (HCC). METHODS: Gene variants were identified using next-generation sequencing targeted on referenced mutations followed by TaqMan genotyping in two case-control studies. RESULTS: We discovered a rare variant (haplotype AG) in CHD5 (rs12564469-rs9434711) that was markedly associated with the risk of HCC in a Chinese population. A logistical regression model and permutation test confirmed the association. Indeed, the association quality increased in a gene dose-dependent manner as the number of samples increased. In the stratified analysis, this haplotype risk effect was statistically significant in a subgroup of alcohol drinkers. The false-positive report probability and multifactor dimensionality reduction further supported the finding. CONCLUSIONS: Our results suggest that the rare CHD5 gene haplotype and alcohol intake contribute to the risk of HCC. Our findings can be valuable to researchers of cancer precision medicine looking to improve diagnosis and treatment of HCC. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1186/s12885-018-4551-y) contains supplementary material, which is available to authorized users. BioMed Central 2018-06-15 /pmc/articles/PMC6003142/ /pubmed/29907144 http://dx.doi.org/10.1186/s12885-018-4551-y Text en © The Author(s). 2018 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. |
spellingShingle | Research Article Xiao, Qin Chen, Lianzhou Luo, Haiqing Li, Hongmei Kong, Qingming Jiao, Fei Pang, Shifeng Zhang, Ming Lan, Feifei Fan, Wenguo Luo, Hui Tao, Tao Zhu, Xiao A rare CHD5 haplotype and its interactions with environmental factors predicting hepatocellular carcinoma risk |
title | A rare CHD5 haplotype and its interactions with environmental factors predicting hepatocellular carcinoma risk |
title_full | A rare CHD5 haplotype and its interactions with environmental factors predicting hepatocellular carcinoma risk |
title_fullStr | A rare CHD5 haplotype and its interactions with environmental factors predicting hepatocellular carcinoma risk |
title_full_unstemmed | A rare CHD5 haplotype and its interactions with environmental factors predicting hepatocellular carcinoma risk |
title_short | A rare CHD5 haplotype and its interactions with environmental factors predicting hepatocellular carcinoma risk |
title_sort | rare chd5 haplotype and its interactions with environmental factors predicting hepatocellular carcinoma risk |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6003142/ https://www.ncbi.nlm.nih.gov/pubmed/29907144 http://dx.doi.org/10.1186/s12885-018-4551-y |
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