Publications

Publications by Paulo Jorge Azevedo

2007

A closer look on protein unfolding Simulations through hierarchical clustering

Authors
Ferreira, PG; Silva, CG; Brito, RMM; Azevedo, PJ;

Publication
2007 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology

Abstract
Understanding protein folding and unfolding mechanisms are a central problem in molecular biology. Data obtained from molecular dynamics unfolding simulations may provide valuable insights for a better understanding of these mechanisms. Here, we propose the application of an augmented version of hierarchical clustering analysis to detect clusters of amino-acid residues with similar behavior in protein unfolding simulations. These clusters hold similar global pattern behavior of solvent accessible surface area (SASA) variation in unfolding simulations of the protein Transthyretin (TTR). Classical hierarchical clustering was applied to build a dendrogram based on the SASA variation of each amino-acid residue. The dendrogram was enriched with background information on the amino-acid residues, enabling the extraction of sub-clusters with well differentiated characteristics.

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2006

Query Driven Sequence Pattern Mining

Authors
Ferreira, PG; Azevedo, PJ;

Publication
XXI Simpósio Brasileiro de Banco de Dados, 16-20 de Outubro, Florianópolis, Santa Catarina, Brasil, Anais/Proceedings

Abstract

2009

Deterministic Motif Mining in Protein Databases

Authors
Ferreira, PG; Azevedo, PJ;

Publication
Database Technologies: Concepts, Methodologies, Tools, and Applications (4 Volumes)

Abstract

1994

Recomputation-Free Lemmatization by Program Transformation

Authors
Azevedo, PJdS; Sergot, MJ;

Publication
Logic Programming, Proceedings of the Eleventh International Conference on Logic Programming, Santa Marherita Ligure, Italy, June 13-18, 1994

Abstract

1995

An Extended Magic Sets Strategy for a Rule Language with Updates and Transactions

Authors
Azevedo, PJdS; Montesi, D;

Publication
Deductive Databases and Logic Programming, Abduction in Deductive Databases and Knowledge-Based Systems, Proceedings of the ICLP'95 Joint Workshop, Shonan Village Center, Japan, June 17, 1995

Abstract

2005

A Hybrid Method for Discovering Distance-Enhanced Inter-Transactional Rules

Authors
Ferreira, PG; Alves, R; Azevedo, PJ; Belo, O;

Publication
Actas de las X Jornadas de Ingeniería del Software y Bases de Datos (JISBD 2005), September 14-16, 2005, Granada, Spain

Abstract