Abstract

A distributed computation of Interpro Pfam, PROSITE and ProDom for protein annotation

Author(s): Edward de O. Ribeiro, Gustavo G. Zerlotini, Irving R.M. Lopes, Victor B.R. Ribeiro, Alba C.M. Melo, Maria Emilia M.T. Walter, Marcos Mota Costa and BIOFOCO Network

Interpro is a widely used tool for protein annotation in genome sequencing projects, demanding a large amount of computation and representing a huge time-consuming step. We present a strategy to execute programs using databases Pfam, PROSITE and ProDom of Interpro in a distributed environment using a Java-based messaging system. We developed a two-layer scheduling architecture of the distributed infrastructure. Then, we made experiments and analyzed the results. Our distributed system gave much better results than Interpro Pfam, PROSITE and ProDom running in a centralized platform. This approach seems to be appropriate and promising for highly demanding computational tools used for biological applications.

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