@article {IOPORT.05735617,
    author       = {Lloyd, Scott and Snell, Quinn O.},
    title        = {Hardware accelerated sequence alignment with traceback.},
    year         = {2009},
    journal      = {International Journal of Reconfigurable Computing},
    volume       = {2009},
    issn         = {1687-7195},
    pages        = {Article ID 762362, 10 p.},
    publisher    = {Hindawi Publishing Corporation, New York, NY},
    doi          = {10.1155/2009/762362},
    abstract     = {Summary: Biological sequence alignment is an essential tool used in molecular biology and biomedical applications. The growing volume of genetic data and the complexity of sequence alignment present a challenge in obtaining alignment results in a timely manner. Known methods to accelerate alignment on reconfigurable hardware only address sequence comparison, limit the sequence length, or exhibit memory and I/O bottlenecks. A space-efficient, global sequence alignment algorithm and architecture is presented that accelerates the forward scan and traceback in hardware without memory and I/O limitations. With 256 processing elements in FPGA technology, a performance gain over 300 times that of a desktop computer is demonstrated on sequence lengths of 16000. For greater performance, the architecture is scalable to more processing elements.},
    identifier   = {05735617},
}