Bioinformatics: High Performance Parallel Computer Architectures

Written by internationally recognized experts, this book introduces emerging parallel architectures, their corresponding programming paradigms, and their bioinformatics applications. Providing two introductory chapters to supply necessary background on sequential bioinformatics algorithms and parallel architectures such as multi-cores, Cell B.E., GPUs, FPGAs, it then presents parallelization strategies and performance evaluations for a number of state-of-the-art bioinformatics algorithms and tools. Topics include pairwise sequence alignment, multiple sequence alignment, BLAST, motif finding, pattern matching, sequence assembly, hidden Markov models, molecular dynamics, and evolutionary tree reconstruction.