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Cancer Informatics

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Evaluating Translocation Gene Fusions by SNP Array Data

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Publication Date: 21 Dec 2011

Type: Original Research

Journal: Cancer Informatics

Citation: Cancer Informatics 2012:11 15-27

doi: 10.4137/CIN.S8026

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.


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Compared with other journals we considered for publishing, Cancer Informatics provided extremely rapid but quality turnaround from draft submission to a flawlessly typeset final publication.  Moreover, sharing the article is now as easy as sharing a link with no subscriptions required, and additional code and data files are equally accessible, supporting reproducible research.  Because it has published many of our references we feel confident that our target readership must follow the journal.  This is further ...
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