Integrated analyses of copy number variations and gene differential expression in lung squamous-cell carcinoma

BACKGROUND: Although numerous efforts have been made, the pathogenesis underlying lung squamous-cell carcinoma (SCC) remains unclear. This study aimed to identify the CNV-driven genes by an integrated analysis of both the gene differential expression and copy number variation (CNV). RESULTS: A highe...

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Autores principales:	Yang,Zhao, Zhuan,Bing, Yan,Ying, Jiang,Simin, Wang,Tao
Lenguaje:	English
Publicado:	Sociedad de Biología de Chile 2015
Materias:	Lung squamous-cell carcinoma Differentially expressed genes Copy number variation Copy number variation-driven genes
Acceso en línea:	http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0716-97602015000100047
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spelling	oai:scielo:S0716-976020150001000472016-02-16Integrated analyses of copy number variations and gene differential expression in lung squamous-cell carcinomaYang,ZhaoZhuan,BingYan,YingJiang,SiminWang,Tao Lung squamous-cell carcinoma Differentially expressed genes Copy number variation Copy number variation-driven genes BACKGROUND: Although numerous efforts have been made, the pathogenesis underlying lung squamous-cell carcinoma (SCC) remains unclear. This study aimed to identify the CNV-driven genes by an integrated analysis of both the gene differential expression and copy number variation (CNV). RESULTS: A higher burden of the CNVs was found in 10-50 kb length. The 16 CNV-driven genes mainly located in chr 1 and chr 3 were enriched in immune response [e.g. complement factor H (CFH) and Fc fragment of IgG, low affinity Ilia, receptor (FCGR3A)], starch and sucrose metabolism [e.g. amylase alpha 2A (AMY2A)]. Furthermore, 38 TFs were screened for the 9 CNV-driven genes and then the regulatory network was constructed, in which the GATA-binding factor 1, 2, and 3 (GATA 1, GATA2, GATA3) jointly regulated the expression of TP63. CONCLUSIONS: The above CNV-driven genes might be potential contributors to the development of lung SCC.info:eu-repo/semantics/openAccessSociedad de Biología de ChileBiological Research v.48 20152015-01-01text/htmlhttp://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0716-97602015000100047en10.1186/S40659-015-0038-3
institution	Scielo Chile
collection	Scielo Chile
language	English
topic	Lung squamous-cell carcinoma Differentially expressed genes Copy number variation Copy number variation-driven genes
spellingShingle	Lung squamous-cell carcinoma Differentially expressed genes Copy number variation Copy number variation-driven genes Yang,Zhao Zhuan,Bing Yan,Ying Jiang,Simin Wang,Tao Integrated analyses of copy number variations and gene differential expression in lung squamous-cell carcinoma
description	BACKGROUND: Although numerous efforts have been made, the pathogenesis underlying lung squamous-cell carcinoma (SCC) remains unclear. This study aimed to identify the CNV-driven genes by an integrated analysis of both the gene differential expression and copy number variation (CNV). RESULTS: A higher burden of the CNVs was found in 10-50 kb length. The 16 CNV-driven genes mainly located in chr 1 and chr 3 were enriched in immune response [e.g. complement factor H (CFH) and Fc fragment of IgG, low affinity Ilia, receptor (FCGR3A)], starch and sucrose metabolism [e.g. amylase alpha 2A (AMY2A)]. Furthermore, 38 TFs were screened for the 9 CNV-driven genes and then the regulatory network was constructed, in which the GATA-binding factor 1, 2, and 3 (GATA 1, GATA2, GATA3) jointly regulated the expression of TP63. CONCLUSIONS: The above CNV-driven genes might be potential contributors to the development of lung SCC.
author	Yang,Zhao Zhuan,Bing Yan,Ying Jiang,Simin Wang,Tao
author_facet	Yang,Zhao Zhuan,Bing Yan,Ying Jiang,Simin Wang,Tao
author_sort	Yang,Zhao
title	Integrated analyses of copy number variations and gene differential expression in lung squamous-cell carcinoma
title_short	Integrated analyses of copy number variations and gene differential expression in lung squamous-cell carcinoma
title_full	Integrated analyses of copy number variations and gene differential expression in lung squamous-cell carcinoma
title_fullStr	Integrated analyses of copy number variations and gene differential expression in lung squamous-cell carcinoma
title_full_unstemmed	Integrated analyses of copy number variations and gene differential expression in lung squamous-cell carcinoma
title_sort	integrated analyses of copy number variations and gene differential expression in lung squamous-cell carcinoma
publisher	Sociedad de Biología de Chile
publishDate	2015
url	http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0716-97602015000100047
work_keys_str_mv	AT yangzhao integratedanalysesofcopynumbervariationsandgenedifferentialexpressioninlungsquamouscellcarcinoma AT zhuanbing integratedanalysesofcopynumbervariationsandgenedifferentialexpressioninlungsquamouscellcarcinoma AT yanying integratedanalysesofcopynumbervariationsandgenedifferentialexpressioninlungsquamouscellcarcinoma AT jiangsimin integratedanalysesofcopynumbervariationsandgenedifferentialexpressioninlungsquamouscellcarcinoma AT wangtao integratedanalysesofcopynumbervariationsandgenedifferentialexpressioninlungsquamouscellcarcinoma
_version_	1718441539456204800

Integrated analyses of copy number variations and gene differential expression in lung squamous-cell carcinoma

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