Purpose: Array-CGH is the technique for detecting multiple chromosomal abnormalities in the genomic DNA with using a single procedure. Compared with conventional CGH, there are many advantages for array-CGH such as high resolution, simplified image analysis and high throughput, and its oligo-strategy allows a genome based design. We analyzed the gene aberrations in breast cancer patient to discover the other genomic aberrations that are associated with c-erbB-2 amplification.
Methods: 10 cases of breast cancer patients, considering its c-erbB-2 status of the paraffin embedded tissues, were analyzed with performing array-CGH.
Results: The repeated aberrations in whole cases were found in 78 loci, of which repeatedly gained in 1p36.33, 19p13.13, and lost in 14q32.33, 4q32.3, 10p15.3, 14q21.1. The unsupervised dendrogram couldn t show significant classifier for its limited case number. Each tissue from one bilateral breast cancer patient showed a different aberration pattern. There were no BRCA1, 2 aberrations in this study. The concordance was 100% between the IHC and the a-CGH. By the supervised clustering on the c-erbB-2 factor, 18 aberrations (gained in 17q12-21.1, 17q12, 17q21.1, 17q11.2 and lost in 22q11.1, 15q11.2) were found in c-erbB-2 (+) group with the permutation t-test. The repeated aberrations of c-erbB-2 (+) group were found in 170 loci, of which repeatedly gained in 17q12, 17q21.1 and lost in 14q32.33, 22q11.1.
Conclusion: Although the number of cases was small, performing a-CGH with paraffin embedded breast cancer tissue was a useful technique for rapidly identifying DNA aberrations with high throughput, and this technique showed significant aberrations for some clinical variables. (J Korean Surg Soc 2006;70:265-274)
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