2nd International Workshop on Practical Applications of Computational Biology and Bioinformatics (IWPACBB 2008)

1. Front Matter

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2. Applications

   1. Comparing Time Series through Event Clustering

      • Juan A. Lara, Aurora Pérez, Juan P. Valente, África López-Illescas

      Pages 1-9

   2. Visual Knowledge-Based Metaphors to Support the Analysis of Polysomnographic Recordings

      • Abraham Otero, Paulo Félix, Carlos Zamarrón

      Pages 10-20

   3. A Bio-inspired Proposal for Focus Attention While Preserving Information

      • O. Bolívar Toledo, J. C. Quevedo Losada, J. A. Muñoz Blanco

      Pages 21-29

   4. Modelling Fed-Batch Fermentation Processes: An Approach Based on Artificial Neural Networks

      • Eduardo Valente, Isabel Rocha, Miguel Rocha

      Pages 30-39

3. Treatment and Diagnosis

   1. New Principles and Adequate Control Methods for Insulin Dosage in Case of Diabetes

      • Levente Kovács

      Pages 40-44

   2. A Framework for CBR Development and Experimentation with Application to Medical Diagnosis

      • Beatriz López, Pablo Gay, Albert Pla, Carles Pous

      Pages 45-54

   3. Identification of Relevant Knowledge for Characterizing the Melanoma Domain

      • Ruben Nicolas, Elisabet Golobardes, Albert Fornells, Susana Puig, Cristina Carrera, Josep Malvehy

      Pages 55-59

   4. TAT-NIDS: An Immune-Based Anomaly Detection Architecture for Network Intrusion Detection

      • Mário Antunes, Manuel Correia

      Pages 60-67

4. Genome

   1. Novel Computational Methods for Large Scale Genome Comparison

      • Todd J. Treangen, Xavier Messeguer

      Pages 68-73

   2. Improving Literature Searches in Gene Expression Studies

      • Joel P. Arrais, João G. L. M. Rodrigues, José Luis Oliveira

      Pages 74-82

   3. Implementing an Interactive Web-Based DAS Client

      • Bernat Gel, Xavier Messeguer

      Pages 83-91

   4. Data Integration Issues in the Reconstruction of the Genome-Scale Metabolic Model of Zymomonas Mobillis

      • José P. Pinto, Oscar Dias, Anália Lourenço, Sónia Carneiro, Eugénio C. Ferreira, Isabel Rocha et al.

      Pages 92-101

5. Microarray 1

   1. Applying CBR Systems to Micro Array Data Classification

      • Sara Rodríguez, Juan F. De Paz, Javier Bajo, Juan M. Corchado

      Pages 102-111

   2. Multiple-Microarray Analysis and Internet Gathering Information with Application for Aiding Medical Diagnosis in Cancer Research

      • Daniel Glez-Peña, Manuel Glez-Bedia, Fernando Díaz, Florentino Fdez-Riverola

      Pages 112-117

   3. Evolutionary Techniques for Hierarchical Clustering Applied to Microarray Data

      • José A. Castellanos-Garzón, Luis A. Miguel-Quintales

      Pages 118-127

   4. Beds and Bits: The Challenge of Translational Bioinformatics

      • Daniel Glez-Peña, Pablo Vicente Carrera, Gonzalo Gómez López, Carmen M. Redondo Marey

      Pages 128-136

6. Microarray 2

   1. A Matrix Factorization Classifier for Knowledge-Based Microarray Analysis

      • R. Schachtner, D. Lutter, A. M. Tomé, G. Schmitz, P. Gómez Vilda, E. W. Lang

      Pages 137-146

   2. Named Entity Recognition and Normalization: A Domain-Specific Language Approach

      • Miguel Vazquez, Monica Chagoyen, Alberto Pascual-Montano

      Pages 147-155

   3. BIORED - A Genetic Algorithm for Pattern Detection in Biosequences

      • Pedro Pereira, Fernando Silva, Nuno A. Fonseca

      Pages 156-165

The success of Bioinformatics in recent years has been prompted by research in mole- lar biology and medicine in initiatives like the human genome project. The volume and diversification of data has increased so much that it is very hard if not impossible to analyze it by human experts. The analysis of this growing body of data, intensified by the development of a number of high-throughput experimental techniques that are generating the so called 'omics' data, has prompted for new computational methods. New global approaches, such as Systems Biology, have been emerging replacing the reductionist view that dominated biology research in the last decades, requiring the coordinated efforts of biological researchers with those related to data analysis, mathematical modelling and computer science. Computational methods have been helping in tasks related to knowledge discovery, modelling and optimization tasks. This workshop brings the opportunity to discuss applications of Bioinformatics and Computational Biology exploring the interactions between computer scientists, bio- gists and other scientific researchers. The IWPACBB technical program includes 29 papers (23 long papers and 6 short papers) selected from a submission pool of 51 papers, from 9 different countries. We thank the excellent work of the local organization members and also from the members of the Program Committee for their excellent reviewing work. October 2008 Juan M. Corchado Juan F. De Paz Miguel P. Rocha Florentino Fernández Riverola Organization

• Biominformatics
• Compuational Biology
• Computational Intelligence
• Simulation
• algorithms
• architecture
• artificial neural network
• biology
• cognition
• construction
• genetic algorithms
• knowledge
• multi-objective optimization
• neural network
• proving

Policies and ethics