Title :
Implementation and evaluation of a Java based computational grid for bioinformatics applications
Author :
Yang, Chao-Tung ; Hsiung, Yi-Chun ; Kan, Heng-Chuan
Author_Institution :
Dept. of Comput. Sci. & Inf. Eng., Tunghai Univ., Taichung City, Taiwan
Abstract :
In the present study, THUBioGrid, an experimental distributed computing application for bioinformatics (BioGrid) is proposed. THUBioGrid incorporates directory services (data and software), grid computing methods (security, authentication, data transport and remote jobs), and gene sequence/genomic data processing methods. It uses Java CoG Kit plus bioinformatics Java packages to perform various computational tasks. The performance of THUBioGrid has been tested by executing the FASTA and mpiBLAST programs for protein sequence alignment applications. Results demonstrate the speed-up effects with increasing number of processors used in the computations.
Keywords :
Java; biology computing; genetics; grid computing; message passing; middleware; proteins; sequences; FASTA program; Java CoG Kit; Java based computational grid; THUBioGrid platform; bioinformatics applications; directory service; distributed computing; genomic data processing; message passing; middleware; mpiBLAST program; protein sequence alignment; Application software; Authentication; Bioinformatics; Data processing; Data security; Distributed computing; Genomics; Grid computing; Java; Packaging; BioGrid; FASTA; Grid Computing; Java CoG; mpiBLAST;
Conference_Titel :
Advanced Information Networking and Applications, 2005. AINA 2005. 19th International Conference on
Print_ISBN :
0-7695-2249-1
DOI :
10.1109/AINA.2005.209
