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Chromatin marks shape mutation landscape at early stage of cancer progression
Somatic mutation rates in cancer differ across the genome in a cancer cell-type specific manner. Although key factors that contribute to the differences were identified, the major cancer progression stage when these factors associate with the mutation variance remained poorly investigated. Here, we...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2017
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5642383/ https://www.ncbi.nlm.nih.gov/pubmed/29263826 http://dx.doi.org/10.1038/s41525-017-0010-y |
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author | Ha, Kyungsik Kim, Hong-Gee Lee, Hwajin |
author_facet | Ha, Kyungsik Kim, Hong-Gee Lee, Hwajin |
author_sort | Ha, Kyungsik |
collection | PubMed |
description | Somatic mutation rates in cancer differ across the genome in a cancer cell-type specific manner. Although key factors that contribute to the differences were identified, the major cancer progression stage when these factors associate with the mutation variance remained poorly investigated. Here, we analyzed whole-genome sequencing data of pre-cancerous and matching cancer tissues from 173 individuals and 423 normal tissue chromatin features to determine the critical stage of these features contributing to shaping the somatic mutation landscape. Our data showed that the establishment of somatic mutation landscape inferred by chromatin features occur early in the process of cancer progression, and gastric acid reflux environmental exposure-mediated epigenetic changes, represented as gastric metaplasia, at early stage can dramatically impact the somatic mutation landscape. We suggest a possible crucial role of chromatin features during the mutation landscape establishment at early stage of progression in a cancer-type specific manner. |
format | Online Article Text |
id | pubmed-5642383 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2017 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-56423832017-12-20 Chromatin marks shape mutation landscape at early stage of cancer progression Ha, Kyungsik Kim, Hong-Gee Lee, Hwajin NPJ Genom Med Article Somatic mutation rates in cancer differ across the genome in a cancer cell-type specific manner. Although key factors that contribute to the differences were identified, the major cancer progression stage when these factors associate with the mutation variance remained poorly investigated. Here, we analyzed whole-genome sequencing data of pre-cancerous and matching cancer tissues from 173 individuals and 423 normal tissue chromatin features to determine the critical stage of these features contributing to shaping the somatic mutation landscape. Our data showed that the establishment of somatic mutation landscape inferred by chromatin features occur early in the process of cancer progression, and gastric acid reflux environmental exposure-mediated epigenetic changes, represented as gastric metaplasia, at early stage can dramatically impact the somatic mutation landscape. We suggest a possible crucial role of chromatin features during the mutation landscape establishment at early stage of progression in a cancer-type specific manner. Nature Publishing Group UK 2017-04-03 /pmc/articles/PMC5642383/ /pubmed/29263826 http://dx.doi.org/10.1038/s41525-017-0010-y Text en © The Author(s) 2017 This work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ |
spellingShingle | Article Ha, Kyungsik Kim, Hong-Gee Lee, Hwajin Chromatin marks shape mutation landscape at early stage of cancer progression |
title | Chromatin marks shape mutation landscape at early stage of cancer progression |
title_full | Chromatin marks shape mutation landscape at early stage of cancer progression |
title_fullStr | Chromatin marks shape mutation landscape at early stage of cancer progression |
title_full_unstemmed | Chromatin marks shape mutation landscape at early stage of cancer progression |
title_short | Chromatin marks shape mutation landscape at early stage of cancer progression |
title_sort | chromatin marks shape mutation landscape at early stage of cancer progression |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5642383/ https://www.ncbi.nlm.nih.gov/pubmed/29263826 http://dx.doi.org/10.1038/s41525-017-0010-y |
work_keys_str_mv | AT hakyungsik chromatinmarksshapemutationlandscapeatearlystageofcancerprogression AT kimhonggee chromatinmarksshapemutationlandscapeatearlystageofcancerprogression AT leehwajin chromatinmarksshapemutationlandscapeatearlystageofcancerprogression |