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Báo cáo y học: " FISH Oracle: a web server for flexible visualization of DNA copy number data in a genomic contex"

Tuyển tập các báo cáo nghiên cứu về y học được đăng trên tạp chí y học Wertheim cung cấp cho các bạn kiến thức về ngành y đề tài: FISH Oracle: a web server for flexible visualization of DNA copy number data in a genomic context. | Mader et al. Journal of Clinical Bioinformatics 2011 1 20 http www.jclinbioinformatics.eom content 1 1 20 JOURNAL OF CLINICAL BIOINFORMATICS RESEARCH Open Access FISH Oracle a web server for flexible visualization of DNA copy number data in a genomic context Malte Mader1 Ronald Simon1 Sascha Steinbiss2 and Stefan Kurtz2 Abstract Background The rapidly growing amount of array CGH data requires improved visualization software supporting the process of identifying candidate cancer genes. Optimally such software should work across multiple microarray platforms should be able to cope with data from different sources and should be easy to operate. Results We have developed a web-based software FISH Oracle to visualize data from multiple array CGH experiments in a genomic context. Its fast visualization engine and advanced web and database technology supports highly interactive use. FISH Oracle comes with a convenient data import mechanism powerful search options for genomic elements e.g. gene names or karyobands quick navigation and zooming into interesting regions and mechanisms to export the visualization into different high quality formats. These features make the software especially suitable for the needs of life scientists. Conclusions FISH Oracle offers a fast and easy to use visualization tool for array CGH and SNP array data. It allows for the identification of genomic regions representing minimal common changes based on data from one or more experiments. FISH Oracle will be instrumental to identify candidate onco and tumor suppressor genes based on the frequency and genomic position of DNA copy number changes. The FISH Oracle application and an installed demo web server are available at http www.zbh.uni-hamburg.de fishoracle. Background In the recent years high resolution genomic tiling arrays and SNP chips have become the standard technology to analyze copy number variations in cancer genomes. Modern arrays are inexpensive and allow for determining copy number