Efficient protein structure alignment algorithms under the MapReduce framework

Che Lun Hung*, Yaw Ling Lin, Chen En Hsieh, Guan Jie Hua

*此作品的通信作者

研究成果: Conference contribution同行評審

摘要

Currently, cloud computing has been applied to share computing resources to achieve coherence and economies of scale similar to a utility over a network. Hadoop is an widely-used open-source cloud computing environment that implements the Google MapReduce framework. Many bioinformatics tools have been developed to provide cloud services by using Hadoop. This paper proposes approaches in providing a pairwise 3D protein structure alignment; our web service takes advantage of the MapReduce paradigm as means of management and parallelizing tools under massive number of protein pairs examined under the experiment. It shows that our previously proposed sequential combinatorial algorithms are well parallelized under the map/reduce platform. These methods are tested on the real-world data obtained in from the RCSB PDB data set; the computation efficiency can be effectively improved proportional to the number of processors being used.

原文English
主出版物標題CloudCom 2012 - Proceedings
主出版物子標題2012 4th IEEE International Conference on Cloud Computing Technology and Science
頁面753-758
頁數6
DOIs
出版狀態Published - 2012
事件2012 4th IEEE International Conference on Cloud Computing Technology and Science, CloudCom 2012 - Taipei, Taiwan
持續時間: 3 12月 20126 12月 2012

出版系列

名字CloudCom 2012 - Proceedings: 2012 4th IEEE International Conference on Cloud Computing Technology and Science

Conference

Conference2012 4th IEEE International Conference on Cloud Computing Technology and Science, CloudCom 2012
國家/地區Taiwan
城市Taipei
期間3/12/126/12/12

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