Bioinformatics BI_W0006

Title : Many-Core Processor Bioinformatics and Next-Generation Sequencing
Author : Francisco J. Esteban, David Díaz, Pilar Hernández, Juan Antonio Caballero, Gabriel Dorado and Sergio Gálvez
Year : 2012
Place of publish :
Abstract :

The new massive DNA sequencing methods demand both computer hardware and bioinformatics software capable of handling huge amounts of data. This paper shows how the many-core processors (in which each core can execute a whole operating system) can be exploited to address problems which previously required expensive supercomputers. Thus, the Needleman-Wunsch/Smith-Waterman pairwise alignments will be described using long DNA sequences (>100 kb), including the implications for progressive multiple alignments. Likewise, assembling algorithms used to generate contigs on sequencing projects (therefore, using short sequences) and the future in peptide (protein) folding computing methods will be also described. Our study also integrates the last trends in many-core processors and their applications in the field of bioinformatics.