AbstractsBiology & Animal Science

Unbalanced transaction can lead to addition and deletions in genes, which can be an indication of tumor cells. This is measured with array Comparative Genomic Hybridization. To find co-occurring aberrations in DNA, an algorithm was designed. However the execution takes days to find these DNA aberrations. This thesis proposes a partial FPGA based design were the number of parallel computations can be increased. The FPGA communicates with a computer on a gigabit Ethernet, where on the FPGA a hardware based Ethernet controller is build. This design is scalable for FPGA’s, so its performance is linear to the size of the FPGA resources. On a XC4VFX12 device, a minimum speedup of a factor 3 and a maximum speedup of several hundreds is achieved.