Metagenomic sequence classification is a procedure to assign sequences to their source genomes. It is one of the important steps for metagenomic sequence data analysis. Although many methods exist, classification of high-throughput metagenomic sequence data in a limited time is still a challenge. We present here an ultra-fast metagenomic sequence classification system (MetaBinG) using graphic processing units (GPUs). The accuracy of MetaBinG is comparable to the best existing systems and it can classify a million of 454 reads within five minutes, which is more than 2 orders of magnitude faster than existing systems. MetaBinG is publicly available at http://cbb.sjtu.edu.cn/\~ccwei/pub/software/MetaBinG/MetaBinG.php.
%0 Journal Article
%1 Jia2011MetaBinG
%A Jia, Peng
%A Xuan, Liming
%A Liu, Lei
%A Wei, Chaochun
%D 2011
%I Public Library of Science
%J PLoS ONE
%K gpu metagenomics
%N 11
%P e25353+
%R 10.1371/journal.pone.0025353
%T MetaBinG: Using GPUs to Accelerate Metagenomic Sequence Classification
%U http://dx.doi.org/10.1371/journal.pone.0025353
%V 6
%X Metagenomic sequence classification is a procedure to assign sequences to their source genomes. It is one of the important steps for metagenomic sequence data analysis. Although many methods exist, classification of high-throughput metagenomic sequence data in a limited time is still a challenge. We present here an ultra-fast metagenomic sequence classification system (MetaBinG) using graphic processing units (GPUs). The accuracy of MetaBinG is comparable to the best existing systems and it can classify a million of 454 reads within five minutes, which is more than 2 orders of magnitude faster than existing systems. MetaBinG is publicly available at http://cbb.sjtu.edu.cn/\~ccwei/pub/software/MetaBinG/MetaBinG.php.
@article{Jia2011MetaBinG,
abstract = {Metagenomic sequence classification is a procedure to assign sequences to their source genomes. It is one of the important steps for metagenomic sequence data analysis. Although many methods exist, classification of high-throughput metagenomic sequence data in a limited time is still a challenge. We present here an ultra-fast metagenomic sequence classification system ({MetaBinG}) using graphic processing units ({GPUs}). The accuracy of {MetaBinG} is comparable to the best existing systems and it can classify a million of 454 reads within five minutes, which is more than 2 orders of magnitude faster than existing systems. {MetaBinG} is publicly available at http://cbb.sjtu.edu.cn/\~{}ccwei/pub/softwa{re/MetaBinG}/{MetaBinG}.php.},
added-at = {2018-12-02T16:09:07.000+0100},
author = {Jia, Peng and Xuan, Liming and Liu, Lei and Wei, Chaochun},
biburl = {https://www.bibsonomy.org/bibtex/2ab4586125986259935b5752b06252a0c/karthikraman},
citeulike-article-id = {10063261},
citeulike-linkout-0 = {http://dx.doi.org/10.1371/journal.pone.0025353},
citeulike-linkout-1 = {http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3223155/},
citeulike-linkout-2 = {http://view.ncbi.nlm.nih.gov/pubmed/22132069},
citeulike-linkout-3 = {http://www.hubmed.org/display.cgi?uids=22132069},
day = 23,
doi = {10.1371/journal.pone.0025353},
interhash = {cb56b2512200e64000ec9e4111f236fd},
intrahash = {ab4586125986259935b5752b06252a0c},
issn = {1932-6203},
journal = {PLoS ONE},
keywords = {gpu metagenomics},
month = nov,
number = 11,
pages = {e25353+},
pmcid = {PMC3223155},
pmid = {22132069},
posted-at = {2011-12-16 06:37:33},
priority = {2},
publisher = {Public Library of Science},
timestamp = {2018-12-02T16:09:07.000+0100},
title = {{MetaBinG}: Using {GPUs} to Accelerate Metagenomic Sequence Classification},
url = {http://dx.doi.org/10.1371/journal.pone.0025353},
volume = 6,
year = 2011
}