A distributed computation of Interpro Pfam, PROSITE and ProDom for protein annotation.
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.
Ribeiro
Edward de O
Ede O
Departamento de Ciência da Computação, Universidade de Brasília, Brasília, DF, Brazil. edward@cic.unb.br
Zerlotini
Gustavo G
GG
Lopes
Irving R M
IR
Ribeiro
Victor B R
VB
Melo
Alba C M
AC
Walter
Maria Emilia M T
ME
Costa
Marcos Mota
MM
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*