Expression of epithelial-mesenchymal transition-related genes increases with copy number in multiple cancer types

Min Zhao; Yining Liu; H Qu

doi:10.18632/oncotarget.8371

Back

Expression of epithelial-mesenchymal transition-related genes increases with copy number in multiple cancer types

Journal article

Open access

Peer reviewed

Expression of epithelial-mesenchymal transition-related genes increases with copy number in multiple cancer types

Min Zhao, Yining Liu and H Qu

Oncotarget, Vol.7(17), pp.24688-24699

2016

DOI: https://doi.org/10.18632/oncotarget.8371

Files and links (2)

pdf

PDF - Published Version (Open Access)6.39 MBDownload View

Published VersionPDF - Published Version (Open Access)CC BY V3.0, Open Access

url

https://doi.org/10.18632/oncotarget.8371View

Published Version

Abstract

pan-cancer

copy number variation

cancer genomics

epithelial-mesenchymal transition (EMT)

gene expression

Epithelial-mesenchymal transition (EMT) is a cellular process through which epithelial cells transform into mesenchymal cells. EMT-implicated genes initiate and promote cancer metastasis because mesenchymal cells have greater invasive and migration capacities than epithelial cells. In this pan-cancer analysis, we explored the relationship between gene expression changes and copy number variations (CNVs) for EMT-implicated genes. Based on curated 377 EMT-implicated genes from the literature, we identified 212 EMT-implicated genes associated with more frequent copy number gains (CNGs) than copy number losses (CNLs) using data from The Cancer Genome Atlas (TCGA). Then by correlating these CNV data with TCGA gene expression data, we identified 71 EMT-implicated genes with concordant CNGs and gene up-regulation in 20 or more tumor samples. Of those, 14 exhibited such concordance in over 110 tumor samples. These 14 genes were predominantly apoptosis regulators, which may implies that apoptosis is critical during EMT. Moreover, the 71 genes with concordant CNG and up-regulation were largely involved in cellular functions such as phosphorylation cascade signaling. This is the first observation of concordance between CNG and up-regulation of specific genes in hundreds of samples, which may indicate that somatic CNGs activate gene expression by increasing the gene dosage.

Details

Title: Expression of epithelial-mesenchymal transition-related genes increases with copy number in multiple cancer types
Authors: Min Zhao (Author) - University of the Sunshine Coast - Faculty of Science, Health, Education and Engineering
Yining Liu (Author) - University of the Sunshine Coast - Faculty of Science, Health, Education and Engineering
H Qu (Author) - Peking University, China
Publication details: Oncotarget, Vol.7(17), pp.24688-24699
Publisher: Impact Journals LLC
Date published: 2016
DOI: 10.18632/oncotarget.8371
ISSN: 1949-2553
Organisation Unit: School of Science and Engineering - Legacy; University of the Sunshine Coast, Queensland; GeneCology Research Centre - Legacy; School of Science, Technology and Engineering; Centre for Bioinnovation
Language: English
Record Identifier: 99449160902621
Output Type: Journal article

Metrics

28 File views/ downloads

1358 Record Views

16 Times Cited - Web of Science

InCites Highlights

These are selected metrics from InCites Benchmarking & Analytics tool, related to this output

Collaboration types: Domestic collaboration; International collaboration
Web Of Science research areas: Cell Biology; Oncology

UN Sustainable Development Goals (SDGs)

This output has contributed to the advancement of the following goals:

Source: InCites