Evolutionary Computation, Machine Learning and Data Mining in Bioinformatics

1. Front Matter

   PDF

2. Association Study between Gene Expression and Multiple Relevant Phenotypes with Cluster Analysis

   • Zhenyu Jia, Yipeng Wang, Kai Ye, Qilan Li, Sha Tang, Shizhong Xu et al.

   Pages 1-12

3. Gaussian Graphical Models to Infer Putative Genes Involved in Nitrogen Catabolite Repression in S. cerevisiae

   • Kevin Kontos, Bruno André, Jacques van Helden, Gianluca Bontempi

   Pages 13-24

4. Chronic Rat Toxicity Prediction of Chemical Compounds Using Kernel Machines

   • Georg Hinselmann, Andreas Jahn, Nikolas Fechner, Andreas Zell

   Pages 25-36

5. Simulating Evolution of Drosophila Melanogaster Ebony Mutants Using a Genetic Algorithm

   • Glennie Helles

   Pages 37-43

6. Microarray Biclustering: A Novel Memetic Approach Based on the PISA Platform

   • Cristian Andrés Gallo, Jessica Andrea Carballido, Ignacio Ponzoni

   Pages 44-55

7. F-score with Pareto Front Analysis for Multiclass Gene Selection

   • Piyushkumar A. Mundra, Jagath C. Rajapakse

   Pages 56-67

8. A Hierarchical Classification Ant Colony Algorithm for Predicting Gene Ontology Terms

   • Fernando E. B. Otero, Alex A. Freitas, Colin G. Johnson

   Pages 68-79

9. Conquering the Needle-in-a-Haystack: How Correlated Input Variables Beneficially Alter the Fitness Landscape for Neural Networks

   • Stephen D. Turner, Marylyn D. Ritchie, William S. Bush

   Pages 80-91

10. Optimal Use of Expert Knowledge in Ant Colony Optimization for the Analysis of Epistasis in Human Disease

    • Casey S. Greene, Jason M. Gilmore, Jeff Kiralis, Peter C. Andrews, Jason H. Moore

    Pages 92-103

11. On the Efficiency of Local Search Methods for the Molecular Docking Problem

    • Jorge Tavares, Salma Mesmoudi, El-Ghazali Talbi

    Pages 104-115

12. A Comparison of Genetic Algorithms and Particle Swarm Optimization for Parameter Estimation in Stochastic Biochemical Systems

    • Daniela Besozzi, Paolo Cazzaniga, Giancarlo Mauri, Dario Pescini, Leonardo Vanneschi

    Pages 116-127

13. Guidelines to Select Machine Learning Scheme for Classification of Biomedical Datasets

    • Ajay Kumar Tanwani, Jamal Afridi, M. Zubair Shafiq, Muddassar Farooq

    Pages 128-139

14. Evolutionary Approaches for Strain Optimization Using Dynamic Models under a Metabolic Engineering Perspective

    • Pedro Evangelista, Isabel Rocha, Eugénio C. Ferreira, Miguel Rocha

    Pages 140-151

15. Clustering Metagenome Short Reads Using Weighted Proteins

    • Gianluigi Folino, Fabio Gori, Mike S. M. Jetten, Elena Marchiori

    Pages 152-163

16. A Memetic Algorithm for Phylogenetic Reconstruction with Maximum Parsimony

    • Jean-Michel Richer, Adrien Goëffon, Jin-Kao Hao

    Pages 164-175

17. Validation of a Morphogenesis Model of Drosophila Early Development by a Multi-objective Evolutionary Optimization Algorithm

    • Rui Dilão, Daniele Muraro, Miguel Nicolau, Marc Schoenauer

    Pages 176-190

18. Refining Genetic Algorithm Based Fuzzy Clustering through Supervised Learning for Unsupervised Cancer Classification

    • Anirban Mukhopadhyay, Ujjwal Maulik, Sanghamitra Bandyopadhyay

    Pages 191-202

19. Back Matter

    PDF

This book constitutes the refereed proceedings of the 7th European Conference on Evolutionary Computation, Machine Learning and Data Mining in Bioinformatics, EvoBIO 2009, held in Tübingen, Germany, in April 2009 colocated with the Evo* 2009 events. The 17 revised full papers were carefully reviewed and selected from 44 submissions. EvoBio is the premiere European event for experts in computer science meeting with experts in bioinformatics and the biological sciences, all interested in the interface between evolutionary computation, machine learning, data mining, bioinformatics, and computational biology. Topics addressed by the papers include biomarker discovery, cell simulation and modeling, ecological modeling, uxomics, gene networks, biotechnology, metabolomics, microarray analysis, phylogenetics, protein interactions, proteomics, sequence analysis and alignment, as well as systems biology.

• Microarray
• bioinformatics
• biology
• data mining
• learning
• machine learning
• modeling
• sequence analysis
• simulation
• algorithm analysis and problem complexity

• Italian National Research Council (CNR), Institute for High-Performance Computing and Networking (ICAR), Rende (CS), Italy

  Clara Pizzuti

• Center for Human Genetics Research Department of Molecular Physiology & Biophysics, Vanderbilt University, Nashville, USA

  Marylyn D. Ritchie

• Department of Animal Production Epidemiology and Ecology, University of Torino, Grugliasco, Italy

  Mario Giacobini

Policies and ethics