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Genome-wide analysis of somatic copy number alterations and chromosomal breakages in osteosarcoma.

Int. J. Cancer 141, 816-828 (2017)
Publishers Version Postprint Research data DOI
Open Access Green
as soon as is submitted to ZB.
Osteosarcoma (OS) is the most common primary malignant bone tumor in children and adolescents. It is characterized by highly complex karyotypes with structural and numerical chromosomal alterations. The observed OS-specific characteristics in localization and frequencies of chromosomal breakages strongly implicate a specific set of responsible driver genes or a specific mechanism of fragility induction. In this study, a comprehensive assessment of somatic copy number alterations (SCNAs) was performed in 160 OS samples using whole-genome CytoScan High Density arrays (Affymetrix, Santa Clara, CA). Genes or regions frequently targeted by SCNAs were identified. Breakage analysis revealed OS specific unstable regions in which well-known OS tumor suppressor genes, including TP53, RB1, WWOX, DLG2, and LSAMP are located. Certain genomic features, such as transposable elements and non-B DNA-forming motifs were found to be significantly enriched in the vicinity of chromosomal breakage sites. A complex breakage pattern - chromothripsis - has been suggested as a widespread phenomenon in OS. It was further demonstrated that hyperploidy and in particular chromothripsis were strongly correlated with OS patient clinical outcome. The revealed OS-specific fragility pattern provides novel clues for understanding the biology of osteosarcoma.
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Publication type Article: Journal article
Document type Scientific Article
Keywords Scnas ; Chromosomal Breakage Pattern ; Chromothripsis ; Driver Genes ; Osteosarcoma; Hidden Markov Model; Fragile Site Fra16d; Tumor-suppressor; Human Cancers; Structural Variations; Protein Expression; Chromothripsis; Dna; Wwox; Instability
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