Erica Perez Marson, José Bento Sterman Ferraz, Flávio Vieira Meirelles, Júlio César de Carvalho Balieiro, Joanir Pereira Eler, Luís Gustavo Girardi Figueiredo, Gerson Barreto MourãoPublished September 6, 2005Genet. Mol. Res. 4 (3): 496-505 (2005) About the AuthorsErica Perez Marson, José Bento Sterman Ferraz, Flávio Vieira Meirelles, Júlio César de Carvalho Balieiro, Joanir Pereira Eler, Luís […]
III Brazilian Workshop on Bioinformatics
The year 2004 marked the celebration of the 50th anniversary of Watson and Crick’s elucidation of the DNA double helix structure, a real mark in the history of science. Since that time auspicious moment in 1954, there were several key advances in biology that contributed to the beginning of the genomics era, marked by the […]
An integrated model for cellular analysis
Eduardo Battistella, José G.C. de Souza, Cláudia K. Barcellos, Ney Lemke and José C.M. MombachPublished September 30, 2005Genet. Mol. Res. 4 (3): 506-513 (2005) About the AuthorsEduardo Battistella, José G.C. de Souza, Cláudia K. Barcellos, Ney Lemke and José C.M. Mombach Corresponding authorJ.G.C. de SouzaEmail: jose@exatas.unisinos.br ABSTRACT We present the MOlecular NETwork (MONET) ontology as […]
A framework based on Web service orchestration for bioinformatics workflow management
Luciano A. Digiampietri, Claudia B. Medeiros, João C. SetubalPublished September 30, 2005Genet. Mol. Res. 4 (3): 535-542 (2005) About the AuthorsLuciano A. Digiampietri, Claudia B. Medeiros, João C. Setubal Corresponding authorL.A. DigiampietriEmail: luciano@ic.unicamp.br ABSTRACT Bioinformatics activities are growing all over the world, with proliferation of data and tools. This brings new challenges: how to understand […]
Reconfigurable systems for sequence alignment and for general dynamic programming
Ricardo P. Jacobi, Mauricio Ayala-Rincón, Luis G.A. Carvalho, Carlos H. Llanos, Reiner W. HartensteinPublished September 30, 2005Genet. Mol. Res. 4 (3): 543-552 (2005) About the AuthorsRicardo P. Jacobi, Mauricio Ayala-Rincón, Luis G.A. Carvalho, Carlos H. Llanos, Reiner W. Hartenstein Corresponing authorR.P. JacobiEmail: rjacobi@cic.unb.br ABSTRACT Reconfigurable systolic arrays can be adapted to efficiently resolve a wide […]
Mutual information content of homologous DNA sequences
Helena Cristina G. Leitão, Luciana S. Pessôa, Jorge StolfiPublished September 30, 2005Genet. Mol. Res. 4 (3): 553-562 (2005) About the AuthorsHelena Cristina G. Leitão, Luciana S. Pessôa, Jorge Stolfi Corresponding authorH.C.G. LeitãoEmail: hcgl@ic.uff.br ABSTRACT The necessary information to reproduce and keep an organism is codified in acid nucleic molecules. Deepening the knowledge about how the […]
An I/O device driver for bioinformatics tools: the case for BLAST
Renato Campos Mauro, Sérgio LifschitzPublished September 30, 2005Genet. Mol. Res. 4 (3): 563-570 (2005) About the AuthorsRenato Campos Mauro, Sérgio Lifschitz Corresponding authorS. LifschitzEmail: sergio@inf.puc-rio.br ABSTRACT There are many bioinformatics tools that deal with input/ output (I/O) issues by using filing systems from the most common operating systems, such as Linux or MS Windows. However, […]
An agent-based system for re-annotation of genomes
Leonardo Vianna do Nascimento, Ana L.C. BazzanPublished September 30, 2005Genet. Mol. Res. 4 (3): 571-580 (2005) About the AuthorsLeonardo Vianna do Nascimento, Ana L.C. Bazzan Corresponding authorL.V. NascimentoEmail: lvnascimento@inf.ufrgs.br ABSTRACT Genome annotation projects can produce incorrect results if they are based on obsolete data or inappropriate models. We have developed an automatic re-annotation system that […]
Reconstruction of phylogenetic trees using the ant colony optimization paradigm
Mauricio Perretto, Heitor Silvério LopesPublished September 30, 2005Genet. Mol. Res. 4 (3): 581-589 (2005) About the AuthorsMauricio Perretto, Heitor Silvério Lopes Corresponding authorH.S. LopesEmail: hslopes@cpgei.cefetpr.br ABSTRACT We developed a new approach for the reconstruction of phylogenetic trees using ant colony optimization metaheuristics. A tree is constructed using a fully connected graph and the problem is […]
A distributed computation of Interpro Pfam,PROSITE and ProDom for protein annotation
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, BIOFOCO NetworkPublished September 30, 2005Genet. Mol. Res. 4 (3): 590-598 (2005) About the AuthorsEdward de O. Ribeiro, Gustavo G. Zerlotini, Irving R.M. Lopes, Victor B.R. Ribeiro, Alba C.M. Melo, Maria Emilia M.T. […]