Kristine M. Wylie
Tanzania
Research Article
mBLAST: Keeping up with the Sequencing Explosion for (Meta) Genome Analysis
Author(s): Curtis Davis, Karthik Kota, Venkat Baldhandapani, Wei Gong, Sahar Abubucker, Eric Becker, John Martin, Kristine M. Wylie, Radhika Khetani, Matthew E. Hudson, George M. Weinstock and Makedonka MitrevaCurtis Davis, Karthik Kota, Venkat Baldhandapani, Wei Gong, Sahar Abubucker, Eric Becker, John Martin, Kristine M. Wylie, Radhika Khetani, Matthew E. Hudson, George M. Weinstock and Makedonka Mitreva
Recent advances in next-generation sequencing technologies require alignment algorithms and software that can keep pace with heightened data production. Standard algorithms, especially protein similarity searches, represent significant bottlenecks in analysis pipelines. For metagenomic approaches in particular, it is now often necessary to search hundreds of millions of sequence reads against large databases. Here we describe mBLAST, an accelerated search algorithm for translated and/or protein alignments to large datasets based on the Basic Local Alignment Search Tool (BLAST) and retaining the high sensitivity of BLAST. The mBLAST algorithms achieve substantial speed up over the National Center for Biotechnology Information (NCBI) programs BLASTX, TBLASTX and BLASTP for large datasets, allowing analysis within reasonable timeframes on standard computer architectures. In this article,.. View More»
DOI:
10.4172/2153-0602.1000135