Evaluating Translocation Gene Fusions by SNP Array Data

Overview

Journal Cancer Inform

Publisher Sage Publications

Specialty Biomedical Engineering

Date 2012 Jan 20

PMID 22259228

Citations 2

Authors

Hong Liu

Asher Zilberstein

Pascal Pannier

Frederic Fleche

Christopher Arendt

Christoph Lengauer

Chang S Hahn

Affiliations

Soon will be listed here.

Abstract

Somatic cell genetic alterations are a hallmark of tumor development and progression. Although various technologies have been developed and utilized to identify genetic aberrations, identifying genetic translocations at the chromosomal level is still a challenging task. High density SNP microarrays are useful to measure DNA copy number variation (CNV) across the genome. Utilizing SNP array data of cancer cell lines and patient samples, we evaluated the CNV and copy number breakpoints for several known fusion genes implicated in tumorigenesis. This analysis demonstrated the potential utility of SNP array data for the prediction of genetic aberrations via translocations based on identifying copy number breakpoints within the target genes. Genome-wide analysis was also performed to identify genes harboring copy number breakpoints across 820 cancer cell lines. Candidate oncogenes were identified that are linked to potential translocations in specific cancer cell lines.

Citing Articles

Undifferentiated Sarcomas in Children Harbor Clinically Relevant Oncogenic Fusions and Gene Copy-Number Alterations: A Report from the Children's Oncology Group.

Laetsch T, Roy A, Xu L, Black J, Coffin C, Chi Y Clin Cancer Res. 2018; 24(16):3888-3897.

PMID: 29691299 PMC: 6335968. DOI: 10.1158/1078-0432.CCR-18-0672.

GeneBreak: detection of recurrent DNA copy number aberration-associated chromosomal breakpoints within genes.

van den Broek E, van Lieshout S, Rausch C, Ylstra B, van de Wiel M, Meijer G F1000Res. 2017; 5:2340.

PMID: 28713543 PMC: 5500957. DOI: 10.12688/f1000research.9259.2.

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