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EST-PAC HPC - a web portal for high-throughput EST annotation and protein sequence prediction

Wong, Adam K. L., Goscinski, Andrzej M. and Lefevre, Christophe 2011, EST-PAC HPC - a web portal for high-throughput EST annotation and protein sequence prediction, in BIOCOM 2011 : Proceedings of the 2011 International Conference on Bioinformatics and Computational Biology, WORLDCOMP 2011, United States, pp. 1-7.

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Title EST-PAC HPC - a web portal for high-throughput EST annotation and protein sequence prediction
Formatted title EST-PAC HPC- a web portal for high-throughput EST annotation and protein sequence preciction
Author(s) Wong, Adam K. L.
Goscinski, Andrzej M.
Lefevre, Christophe
Conference name International Conference on Bioinformatics and Computational Biology (12th : 2011 : Las Vegas, Nev.)
Conference location Las Vegas, Nev.
Conference dates 18-21 July. 2011
Title of proceedings BIOCOM 2011 : Proceedings of the 2011 International Conference on Bioinformatics and Computational Biology
Editor(s) Arabnia, Hamid R.
Tran, Quoc-Nam
Publication date 2011
Conference series International Conference on Bioinformatics and Computational Biology
Start page 1
End page 7
Total pages 7
Publisher WORLDCOMP 2011
Place of publication United States
Keyword(s) Expressed Sequence Tag
High Throughput EST Annotations
EST Data Mining
Grid and Cloud Computing
performance evaluation
Summary Expressed Sequence Tags (ESTs) are short DNA sequences generated by sequencing the transcribed cDNAs coming from a gene expression. They can provide significant functional, structural and evolutionary information and thus are a primary resource for gene discovery. EST annotation basically refers to the analysis of unknown ESTs that can be performed by database similarity search for possible identities and database search for functional prediction of translation products. Such kind of annotation typically consists of a series of repetitive tasks which should be automated, and be customizable and amenable to using distributed computing resources. Furthermore, processing of EST data should be done efficiently using a high performance computing platform. In this paper, we describe an EST annotator, EST-PACHPC, which has been developed for harnessing HPC resources potentially from Grid and Cloud systems for high throughput EST annotations. The performance analysis of EST-PACHPC has shown that it provides substantial performance gain in EST annotation.
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Language eng
Field of Research 080501 Distributed and Grid Systems
Socio Economic Objective 890206 Internet Hosting Services (incl. Application Hosting Services)
HERDC Research category E1 Full written paper - refereed
HERDC collection year 2011
Copyright notice ©2011, WORLDCOMP
Persistent URL http://hdl.handle.net/10536/DRO/DU:30045595

Document type: Conference Paper
Collections: School of Information Technology
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Every reasonable effort has been made to ensure that permission has been obtained for items included in DRO. If you believe that your rights have been infringed by this repository, please contact drosupport@deakin.edu.au.