Using GPUs for the exact alignment of short-read genetic sequences by means of the burrows-wheeler transform

IEEE/ACM Transactions on Computational Biology and Bioinformatics

Volumn 9, Issue 4, 2012, Pages 1245-1256

  Salavert Torres, José ^a   Blanquer Espert, Ignacio ^a   Tomás Dominguez, Andrés ^a   Hernáendez García, Vicente ^a   Castelló Medina, Ignacio ^b   Terraga Giménez, Joaquín ^b   Dopazo Blázquez, Joaquín ^b  

^a CIEMAT   (Spain)

^b CENTRO DE INVESTIGACIÓN PRÍNCIPE FELIPE   (Spain)

Author keywords

Burrows Wheeler Transform; CUDA; GPU; Short read alignment

Indexed keywords

BURROWS WHEELER TRANSFORM; CUDA; FINE GRAIN PARALLELISM; GENERAL PURPOSE GRAPHIC PROCESSING UNITS; GENETIC SEQUENCE; GPU; MEMORY LOCALITY; NUCLEOTIDE SEQUENCES; SEARCH TREES;

ALGORITHMS; ALIGNMENT; PROGRAM PROCESSORS;

TREES (MATHEMATICS);

ALGORITHM; ANIMAL; ARTICLE; BIOLOGICAL MODEL; BIOLOGY; COMPUTER GRAPHICS; DNA SEQUENCE; DROSOPHILA MELANOGASTER; GENE; GENETICS; IMAGE PROCESSING; INFORMATION PROCESSING; METHODOLOGY; SEQUENCE ALIGNMENT;

ALGORITHMS; ANIMALS; COMPUTATIONAL BIOLOGY; COMPUTER GRAPHICS; DATA COMPRESSION; DROSOPHILA MELANOGASTER; GENES, INSECT; IMAGE PROCESSING, COMPUTER-ASSISTED; MODELS, GENETIC; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS, DNA;

EID: 84861525596     PISSN: 15455963     EISSN: None     Source Type: Journal    
DOI: 10.1109/TCBB.2012.49     Document Type: Article

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