One of the main research problems in Structural Bioinformatics is the analysis and prediction of three-dimensional structures (3-D) of polypeptides or proteins. The 1990’s Genome projects resulted in a large increase in the number of protein sequences. However, the number of identified 3-D protein structures has not followed the same trend. The determination of protein structure is experimental...

Protein Fold Recognition (PFR) is defined as assigning a given protein to a fold based on its major secondary structure. PFR is considered as an important step toward protein structure prediction and drug design. However, it still remains as an unsolved problem for biological science and bioinformatics. In this study, we explore the impact of two novel feature extraction methods namely overlapp...

Rough set-based rule induction allows easily interpretable descriptions of complex biological systems. Here, we review a number of applications of rough sets to problems in bioinformatics, including cancer classification, gene and protein function prediction, gene regulation, protein-drug interaction and drug resistance.

This talk will review a little over a decade’s research on applying certain stochastic models to biological sequence analysis. The models themselves have a longer history, going back over 30 years, although many novel variants have arisen since that time. The function of the models in biological sequence analysis is to summarize the information concerning what is known as a motif or a domain in...

The purpose of this report is to verify attendance of the author to the Algorithms in BioInformatics course at the department of computer science, University of Aarhus. Following a description of the problem that is to be solved, a basic solution is given along with pseudo-code of the associated algorithms. The model is then extended to solve most of the additional problems posed in the project...

Association analysis is one of the most popular analysis paradigms in data mining. Despite the solid foundation of association analysis and its potential applications, this group of techniques is not as widely used as classification and clustering, especially in the domain of bioinformatics and computational biology. In this paper, we present different types of association patterns and discuss ...

Protein secondary structure prediction is a problem related to structural bioinformatics which deals with the prediction and analysis of macromolecules i.e. DNA, RNA and protein. It is an important step towards elucidating its three dimensional structure, as well as its function. Secondary structure of a protein can be predicted from its primary structures i.e. from the amino

Grid and distributed public computing schemes has become an essential tool for many scientific fields including bioinformatics, computational biology and systems biology. The adoption of these technologies has given rise to a wide range of projects and contributions that provide various ways of setting up these environments and exploiting their potential resources and services for different dom...

Hierarchical classification problems gained increasing attention within the machine learning community, and several methods for hierarchically structured taxonomies have been recently proposed, with applications ranging from classification of web documents to bioinformatics. In this paper we propose a novel ensemble algorithm for multilabel, multi-path, tree-structured hierarchical classificati...