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Biological Research

Print version ISSN 0716-9760

Abstract

YANG, Zhao et al. Integrated analyses of copy number variations and gene differential expression in lung squamous-cell carcinoma. Biol. Res. [online]. 2015, vol.48, pp.1-8. ISSN 0716-9760.  http://dx.doi.org/10.1186/S40659-015-0038-3.

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.

Keywords : Lung squamous-cell carcinoma; Differentially expressed genes; Copy number variation; Copy number variation-driven genes.

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