Advances in Bioinformatics

1. Front Matter

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2. Microarrays

   1. Highlighting Differential Gene Expression between Two Condition Microarrays through Heterogeneous Genomic Data: Application to Lesihmania infantum Stages Comparison

      • Liliana López Kleine, Víctor Andrés Vera Ruiz

      Pages 1-8

   2. An Experimental Evaluation of a Novel Stochastic Method for Iterative Class Discovery on Real Microarray Datasets

      • Héctor Gómez, Daniel Glez-Peña, Miguel Reboiro-Jato, Reyes Pavón, Fernando Díaz, Florentino Fdez-Riverola

      Pages 9-16

   3. Automatic Workflow during the Reuse Phase of a CBP System Applied to Microarray Analysis

      • Juan F. De Paz, Ana B. Gil, Emilio Corchado

      Pages 17-24

   4. A Comparative Study of Microarray Data Classification Methods Based on Ensemble Biological Relevant Gene Sets

      • Miguel Reboiro-Jato, Daniel Glez-Peña, Juan Francisco Gálvez, Rosalía Laza Fidalgo, Fernando Díaz, Florentino Fdez-Riverola

      Pages 25-32

3. Data Mining and Data Integration

   1. Predicting the Start of Protein α-Helices Using Machine Learning Algorithms

      • Rui Camacho, Rita Ferreira, Natacha Rosa, Vânia Guimarães, Nuno A. Fonseca, Vítor Santos Costa et al.

      Pages 33-41

   2. A Data Mining Approach for the Detection of High-Risk Breast Cancer Groups

      • Orlando Anunciação, Bruno C. Gomes, Susana Vinga, Jorge Gaspar, Arlindo L. Oliveira, José Rueff

      Pages 43-51

   3. GRASP for Instance Selection in Medical Data Sets

      • Alfonso Fernández, Abraham Duarte, Rosa Hernández, Ángel Sánchez

      Pages 53-60

   4. Expanding Gene-Based PubMed Queries

      • Sérgio Matos, Joel P. Arrais, José Luis Oliveira

      Pages 61-68

   5. Improving Cross Mapping in Biomedical Databases

      • Joel Arrais, João E. Pereira, Pedro Lopes, Sérgio Matos, José Luis Oliveira

      Pages 69-76

   6. An Efficient Multi-class Support Vector Machine Classifier for Protein Fold Recognition

      • Wiesław Chmielnicki, Katarzyna Sta̧por, Irena Roterman-Konieczna

      Pages 77-84

   7. Feature Selection Using Multi-Objective Evolutionary Algorithms: Application to Cardiac SPECT Diagnosis

      • António Gaspar-Cunha

      Pages 85-92

4. Phylogenetics and Sequence Analysis

   1. Two Results on Distances for Phylogenetic Networks

      • Gabriel Cardona, Mercè Llabrés, Francesc Rosselló

      Pages 93-100

   2. Cramér Coefficient in Genome Evolution

      • Vera Afreixo, Adelaide Freitas

      Pages 101-107

   3. An Application for Studying Tandem Repeats in Orthologous Genes

      • José Paulo Lousado, José Luis Oliveira, Gabriela Moura, Manuel A. S. Santos

      Pages 109-115

   4. Accurate Selection of Models of Protein Evolution

      • Mateus Patricio, Federico Abascal, Rafael Zardoya, David Posada

      Pages 117-121

   5. Scalable Phylogenetics through Input Preprocessing

      • Roberto Blanco, Elvira Mayordomo, Esther Montes, Rafael Mayo, Angelines Alberto

      Pages 123-130

   6. The Median of the Distance between Two Leaves in a Phylogenetic Tree

      • Arnau Mir, Francesc Rosselló

      Pages 131-135

   7. In Silico AFLP: An Application to Assess What Is Needed to Resolve a Phylogeny

      • María Jesús García-Pereira, Armando Caballero, Humberto Quesada

      Pages 137-141

   8. Employing Compact Intra-genomic Language Models to Predict Genomic Sequences and Characterize Their Entropy

      • Sérgio Deusdado, Paulo Carvalho

      Pages 143-150

The fields of Bioinformatics and Computational Biology have been growing steadily over the last few years boosted by an increasing need for computational techniques that can efficiently handle the huge amounts of data produced by the new experimental techniques in Biology. This calls for new algorithms and - proaches from fields such as Data Integration, Statistics, Data Mining, Machine Learning, Optimization, Computer Science and Artificial Intelligence. Also, new global approaches, such as Systems Biology, have been emerging replacing the reductionist view that dominated biological research in the last d- ades. Indeed, Biology is more and more a science of information needing tools from the information technology field. The interaction of researchers from diff- ent scientific fields is, more than ever, of foremost importance and we hope this event will contribute to this effort. IWPACBB'10 technical program included a total of 30 papers (26 long papers and 4 short papers) spanning many different sub-fields in Bioinformatics and Computational Biology. Therefore, the technical program of the conference will certainly be diverse, challenging and will promote the interaction among computer scientists, mathematicians, biologists and other researchers. We would like to thank all the contributing authors, as well as the members of the Program Committee and the Organizing Committee for their hard and highly valuable work. Their work has helped to contribute to the success of the IWAPCBB’10 event. IWPACBB’10 wouldn’t exist without your contribution.

• Ensembl
• In silico
• Microarray
• algorithms
• bioinformatics
• data mining
• databases
• genome
• sequence analysis

• Dep. Informática / CCTC, Universidade do Minho, Braga, Portugal

  Miguel P. Rocha

• Escuela Superior de Ingeniería Informática Edificio Politécnico, Ourense, Spain

  Florentino Fernández Riverola

• Computational Biology and Machine Learning Lab, School of Computing, Queen’s University, Kingston, Canada

  Hagit Shatkay

• Departamento de Informática y Automática Facultad de Ciencias, Universidad de Salamanca, Salamanca, Spain

  Juan Manuel Corchado

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