@article {16292,
	title = {Ultrafast and memory-efficient alignment of short DNA sequences to the human genome},
	journal = {Genome Biology},
	volume = {10},
	year = {2009},
	month = {2009/03/04/},
	pages = {R25 - R25},
	abstract = {Bowtie is an ultrafast, memory-efficient alignment program for aligning short DNA sequence reads to large genomes. For the human genome, Burrows-Wheeler indexing allows Bowtie to align more than 25 million reads per CPU hour with a memory footprint of approximately 1.3 gigabytes. Bowtie extends previous Burrows-Wheeler techniques with a novel quality-aware backtracking algorithm that permits mismatches. Multiple processor cores can be used simultaneously to achieve even greater alignment speeds. Bowtie is open source http://bowtie.cbcb.umd.edu.},
	isbn = {1465-6906},
	doi = {10.1186/gb-2009-10-3-r25},
	url = {http://genomebiology.com/2009/10/3/R25},
	author = {Langmead,Ben and Trapnell,Cole and Pop, Mihai and Salzberg,Steven L.}
}
