Protein structure comparison and visualization tools on cloud platform

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

研究成果: Chapter同行評審

摘要

The biological function of a protein molecule is decided by its 3D-shape, which eventually determines how the molecule interacts with other molecules in living cells. Identifying similar structures between proteins provide the opportunity to recognize homology that is undetectable by sequence comparison. Thus comparison and alignment of protein structures represents a powerful means of discovering functions, yielding direct insight into the molecular mechanisms. This paper proposes approaches in providing visualization tools for 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Advances in Intelligent Systems and Applications -Volume 1 Proceedings of the International Computer Symposium ICS 2012 Held at Hualien,Taiwan
編輯Jain Lakhmi, Chang Ruay-Shiung, Peng Sheng-Lung
頁面167-176
頁數10
DOIs
出版狀態Published - 2013

出版系列

名字Smart Innovation, Systems and Technologies
20
ISSN(列印)2190-3018
ISSN(電子)2190-3026

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