Abstract
Based on the available genetic and cytogenetic literature, it is a widely assumed hypothesis that chromosome translocations (CT) and their specific effects on oncogene expression are main players in the development and progression of all types of cancer. However, our knowledge about CT in solid tumours is clearly less relevant than in leukaemias and sarcomas. Using in silico analysis and FISH customized probes we have identified and tested a list of candidate genes that could be susceptible to be rearranged in bladder cancer. (1) For the in silico approach, we have adapted a bioinformatics system to find genes that could be involved in CT by analyzing gene expression array data of bladder cancers. A Cancer Outlier Profile Analysis (COPA) algorithm was used to assign a probability to each found gene to be a partner in translocation events. (2) We designed break-apart FISH probes and have tested the status of theses genes in a tissue microarray (TMA) that contains 117 bladder carcinoma samples. (1) 36 genes were identified by the in silico approach for the bladder cancer study. (2) Among the identified genes, transcription factors such as ETV6, ETV1, ERG, and EWSR1, as well as membrane receptors such as EGFR, were prioritized by the FISH analysis. We have already prepared 17 break-apart FISH probes that are currently being analyzed in the TMA.
Published Version
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