Local Alignment Tool Based on Hadoop Framework and GPU Architecture

With the rapid growth of next generation sequencing technologies, such as Slex, more and more data have been discovered and published. To analyze such huge data the computational performance is an important issue. Recently, many tools, such as SOAP, have been implemented on Hadoop and GPU parallel c...

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Bibliographic Details
Published in:BioMed research international 2014-01, Vol.2014 (2014), p.1-7
Main Authors: Hung, Che-Lun, Hua, Guan-Jie
Format: Article
Language:English
Subjects:
Algorithms
Amino Acid Sequence
Big Data
Bioinformatics
Cloud computing
Computational Biology
Computer science
Employment
Fault tolerance
High-Throughput Nucleotide Sequencing
Open source software
Proteins
Sequence Alignment
Software
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Summary:With the rapid growth of next generation sequencing technologies, such as Slex, more and more data have been discovered and published. To analyze such huge data the computational performance is an important issue. Recently, many tools, such as SOAP, have been implemented on Hadoop and GPU parallel computing architectures. BLASTP is an important tool, implemented on GPU architectures, for biologists to compare protein sequences. To deal with the big biology data, it is hard to rely on single GPU. Therefore, we implement a distributed BLASTP by combining Hadoop and multi-GPUs. The experimental results present that the proposed method can improve the performance of BLASTP on single GPU, and also it can achieve high availability and fault tolerance.
ISSN:2314-6133
2314-6141
DOI:10.1155/2014/541490