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.
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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Field of Research
080501 Distributed and Grid Systems
Socio Economic Objective
890206 Internet Hosting Services (incl. Application Hosting Services)