title: A distributed computation of Interpro Pfam, PROSITE and ProDom for protein annotation.
abstract: 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.
authors.affiliation: Departamento de Ciência da Computação, Universidade de Brasília, Brasília, DF, Brazil. edward@cic.unb.br
authors.forename: Edward de O
authors.initials: Ede O
authors.lastname: Ribeiro
authors.forename: Gustavo G
authors.initials: GG
authors.lastname: Zerlotini
authors.forename: Irving R M
authors.initials: IR
authors.lastname: Lopes
authors.forename: Victor B R
authors.initials: VB
authors.lastname: Ribeiro
authors.forename: Alba C M
authors.initials: AC
authors.lastname: Melo
authors.forename: Maria Emilia M T
authors.initials: ME
authors.lastname: Walter
authors.forename: Marcos Mota
authors.initials: MM
authors.lastname: Costa
mesh_terms: D019295:Computational Biology / Q000379:methods*; D003628:Database Management Systems; D016208:Databases, Factual; D030562:Databases, Protein; D016045:Human Genome Project; D006801:Humans; D016415:Sequence Alignment; D020539:Sequence Analysis, Protein / Q000379:methods*