Acceleration of Bioinformatics Sequence Alignment

Biological sequence alignment is an important and challenging task in bioinformatics. Alignment may be defined as an arrangement of two or more DNA or protein sequences to highlight the regions of their similarity. Sequence alignment is used to infer the evolutionary relationship between a set of protein orDNA sequences. An accurate alignment can provide valuable information for experimentation on the newlyfound sequences. It is indispensable in basic research as well as in practical applications such aspharmaceutical development, drug discovery, diseaseprevention and criminal forensics. Many algorithms and methods, such as, dot plot, Needleman-Wunsch, Smith-Waterman, FASTA, BLAST, HMMERand ClustalW have been proposed to perform and accelerate sequence alignment activities. However, with the ever increasing volume of data in bioinformatics databases, the time needed for biological sequence alignment is always increasing. The main aim of the topics presented in this book is to explore and analyze the existing sequence alignment methods and come up with better and optimized solutions.

Autorentext

Laiq Hasan was born on April 11, 1976 in Swabi, Pakistan. He did his M.Sc. in Electrical Engineering from Engineering University Peshawar in 2003. He worked as a faculty member in the same university before joining TU Delft for his PhD studies in 2005. He has published various scientific papers in international conferences and journals.