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Publication Details
AFRICAN RESEARCH NEXUS
SHINING A SPOTLIGHT ON AFRICAN RESEARCH
A global view of the oncogenic landscape in Nasopharyngeal Carcinoma: An integrated analysis at the genetic and expression levels
PLoS ONE, Volume 7, No. 7, Article e41055, Year 2012
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Description
Previous studies have reported that the tumour cells of nasopharyngeal carcinoma (NPC) exhibit recurrent chromosome abnormalities. These genetic changes are broadly assumed to lead to changes in gene expression which are important for the pathogenesis of this tumour. However, this assumption has yet to be formally tested at a global level. Therefore a genome wide analysis of chromosome copy number and gene expression was performed in tumour cells micro-dissected from the same NPC biopsies. Cellular tumour suppressor and tumour-promoting genes (TSG, TPG) and Epstein-Barr Virus (EBV)-encoded oncogenes were examined. The EBV-encoded genome maintenance protein EBNA1, along with the putative oncogenes LMP1, LMP2 and BARF1 were expressed in the majority of NPCs that were analysed. Significant downregulation of expression in an average of 76 cellular TSGs per tumour was found, whilst a per-tumour average of 88 significantly upregulated, TPGs occurred. The expression of around 60% of putative TPGs and TSGs was both up-and down-regulated in different types of cancer, suggesting that the simplistic classification of genes as TSGs or TPGs may not be entirely appropriate and that the concept of context-dependent onco-suppressors may be more extensive than previously recognised. No significant enrichment of TPGs within regions of frequent genomic gain was seen but TSGs were significantly enriched within regions of frequent genomic loss. It is suggested that loss of the FHIT gene may be a driver of NPC tumourigenesis. Notwithstanding the association of TSGs with regions of genomic loss, on a gene by gene basis and excepting homozygous deletions and high-level amplification, there is very little correlation between chromosomal copy number aberrations and expression levels of TSGs and TPGs in NPC. © 2012 Hu et al.
Available Materials
https://efashare.b-cdn.net/share/pmc/articles/PMC3398876/bin/pone.0041055.s001.tif
https://efashare.b-cdn.net/share/pmc/articles/PMC3398876/bin/pone.0041055.s002.xls
https://efashare.b-cdn.net/share/pmc/articles/PMC3398876/bin/pone.0041055.s003.xls
https://efashare.b-cdn.net/share/pmc/articles/PMC3398876/bin/pone.0041055.s004.doc
https://efashare.b-cdn.net/share/pmc/articles/PMC3398876/bin/pone.0041055.s005.xls
https://efashare.b-cdn.net/share/pmc/articles/PMC3398876/bin/pone.0041055.s006.xls
https://efashare.b-cdn.net/share/pmc/articles/PMC3398876/bin/pone.0041055.s007.xls
https://efashare.b-cdn.net/share/pmc/articles/PMC3398876/bin/pone.0041055.s008.doc
https://efashare.b-cdn.net/share/pmc/articles/PMC3398876/bin/pone.0041055.s009.doc
https://efashare.b-cdn.net/share/pmc/articles/PMC3398876/bin/pone.0041055.s010.doc
https://efashare.b-cdn.net/share/pmc/articles/PMC3398876/bin/pone.0041055.s011.doc
Authors & Co-Authors
Hu, Chunfang
United Kingdom, Birmingham
University of Birmingham
Wei, Wenbin
United Kingdom, Birmingham
University of Birmingham
Chen, Xiaoyi
United Kingdom, Birmingham
University of Birmingham
China, Zhanjiang
Guangdong Medical University
Woodman, Ciarán Bernard John
United Kingdom, Birmingham
University of Birmingham
Yao, Yunhong
United Kingdom, Birmingham
University of Birmingham
China, Zhanjiang
Guangdong Medical University
Nicholls, John M.
Hong Kong, Hong Kong
The University of Hong Kong
Joab, Irène
France, Gif-sur-yvette
Université Paris-saclay
Sihota, Sim K.
United Kingdom, Birmingham
University of Birmingham
Shao, Jian Yong
China, Guangzhou
Sun Yat-sen University Cancer Center
Derkaoui, Khadidja
Algeria, Oran
Université Oran 1
Amari, Aicha
Algeria, Oran
Orl Centre Hospitalier et Universitaire
Maloney, Stephanie L.
United Kingdom, Birmingham
University of Birmingham
Bell, Andrew I.
United Kingdom, Birmingham
University of Birmingham
Paul Gerard Murray, Paul Gerard
United Kingdom, Birmingham
University of Birmingham
Dawson, Christopher W.
United Kingdom, Birmingham
University of Birmingham
Young, Lawrence S.
United Kingdom, Birmingham
University of Birmingham
Arrand, John R.
United Kingdom, Birmingham
University of Birmingham
Statistics
Citations: 59
Authors: 17
Affiliations: 7
Identifiers
Doi:
10.1371/journal.pone.0041055
e-ISSN:
19326203
Research Areas
Cancer
Genetics And Genomics