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Int J Clin Exp Pathol 2012;5(8):834-839

Case Report
Array CGH analysis of the rare laryngeal basaloid squamous cell carcinoma – a case
report

Szilvia Ecsedi1,2*, László Tóth3*, Margit Balázs1,2

Department of Preventive Medicine, Faculty of Public Health, Medical and Health Science Center, University of Debrecen, Hungary; Public
Health Research Group of the Hungarian Academy of Sciences, University of Debrecen, Hungary; Department of Otorhinolaryngology – Head
and Neck Surgery, Faculty of Medicine, Medical and Health Science Center, University of Debrecen, Hungary. *The first two authors contributed
equally.

Received July 20, 2012; Accepted September 6, 2012; Epub October 1, 2012; Published October 15, 2012

Abstract: The aim of this study was to define copy number alterations in a rare laryngeal type basaloid squamous cell carcinoma (laryngeal
BSCC) using high throughput array comparative genomic hybridization. This is the first genome wide screening of a laryngeal BSCC describing
the unique events of DNA copy number changes. By Nimble-Gen Whole Genome Tiling Array CGH (consisting of 72,000 probes) we were able
to identify 3,777 genes altered by copy number changes (1,726 genes with copy number gains and 2,051 genes with copy number with
losses). The resolution of the array allowed us to identify a new alteration at the 17q21.31 region covering the DUSP3 gene which encodes the
dual-specific protein phosphatase. Functional studies of the altered genes (Database for Annotation, Visualization and Integrated Discovery v6.
7 analysis) highlighted molecular pathways including chemokine signaling, cell cycle, adherent junction-, VEGF- and TGF-beta signaling
pathways that might be disrupted by copy number alterations in laryngeal BSCC. (IJCEP1207017).

Keywords: Laryngeal BSCC, copy number alteration, array CGH

Address all correspondence to:
Dr. Margit Balázs, Department of Preventive Medicine, Faculty of Public Health, Medical and Health Science Center, University of Debrecen,
Debrecen 4028 Kassai Str. 26/b Hungary. Tel: (36)-52-460-193 extension 77151; E-mail: balazs.margit@sph.unideb.hu