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Computational Intelligence Methods for Bioinformatics and Biostatistics

7th International Meeting, CIBIB 2010, Palermo, Italy, September 16-18, 2010, Revised Selected Papers

  • Conference proceedings
  • © 2011

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Editors:
  1. Riccardo Rizzo

    1. ICAR-CNR, Consiglio Nazionale delle Ricerche, Palermo, Italy

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  2. Paulo J. G. Lisboa

    1. School of Computing and Mathematical Sciences, Liverpool John Moores University, Liverpool, UK

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Part of the book series: Lecture Notes in Computer Science (LNCS, volume 6685)

Part of the book sub series: Lecture Notes in Bioinformatics (LNBI)

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Conference proceedings info: CIBB 2010.

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About this book

This book constitutes the thoroughly refereed post-proceedings of the 7th International Meeting on Computational Intelligence Methods for Bioinformatics and Biostatistics, CIBB 2010, held in Palermo, Italy, in September 2010. The 19 papers, presented together with 2 keynote speeches and 1 tutorial, were carefully reviewed and selected from 24 submissions. The papers are organized in topical sections on sequence analysis, promoter analysis and identification of transcription factor binding sites; methods for the unsupervised analysis, validation and visualization of structures discovered in bio-molecular data -- prediction of secondary and tertiary protein structures; gene expression data analysis; bio-medical text mining and imaging -- methods for diagnosis and prognosis; mathematical modelling and simulation of biological systems; and intelligent clinical decision support systems (i-CDSS).

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Table of contents (22 papers)

  1. Front Matter

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  2. Tutorial

    1. Management and Analysis of Protein-to-Protein Interaction Data

      • Mario Cannataro, Pietro Hiram Guzzi
      Pages 1-12

  3. Plenary Talks

    1. The Three Steps of Clustering in the Post-Genomic Era: A Synopsis

      • R. Giancarlo, G. Lo Bosco, L. Pinello, F. Utro
      Pages 13-30

    2. De Novo Protein Subcellular Localization Prediction by N-to-1 Neural Networks

      • Catherine Mooney, Yong-Hong Wang, Gianluca Pollastri
      Pages 31-43

  4. Sequence Analysis, Promoter Analysis and Identification of Transcription Factor Binding Sites

    1. Osmoprotectants in the Sugarcane (Saccharum spp.) Transcriptome Revealed by in Silico Evaluation

      • Petra Barros dos Santos, Nina da Mota Soares-Cavalcanti, Gabriela S. Vieira-de-Melo, Ana Maria Benko-Iseppon
      Pages 44-58

    2. IP6K Gene Discovery in Plant mtDNA

      • Fabio Fassetti, Ofelia Leone, Luigi Palopoli, Simona E. Rombo, Adolfo Saiardi
      Pages 59-71

    3. Identification and Expression of Early Nodulin in Sugarcane Transcriptome Revealed by in Silico Analysis

      • Gabriela Souto Vieira-de-Mello, Petra Barros dos Santos, Nina da Mota Soares-Cavalcanti, Ana Maria Benko-Iseppon
      Pages 72-85

  5. Methods for the Unsupervised Analysis, Validation and Visualization of Structures Discovered in Bio-molecular Data – Prediction of Secondary and Tertiary Protein Structures

    1. An Interactive Method of Anatomical Segmentation and Gene Expression Estimation for an Experimental Mouse Brain Slice

      • Anton Osokin, Dmitry Vetrov, Alexey Lebedev, Vladimir Galatenko, Dmitry Kropotov, Konstantin Anokhin
      Pages 86-97

    2. Prediction of the Bonding State of Cysteine Residues in Proteins with Machine-Learning Methods

      • Castrense Savojardo, Piero Fariselli, Pier Luigi Martelli, Priyank Shukla, Rita Casadio
      Pages 98-111

    3. Supervised Classification Methods for Mining Cell Differences as Depicted by Raman Spectroscopy

      • Petros Xanthopoulos, Roberta De Asmundis, Mario Rosario Guarracino, Georgios Pyrgiotakis, Panos M. Pardalos
      Pages 112-122

  6. Gene Expression Data Analysis

    1. Use of Biplots and Partial Least Squares Regression in Microarray Data Analysis for Assessing Association between Genes Involved in Different Biological Pathways

      • Niccoló Bassani, Federico Ambrogi, Danila Coradini, Elia Biganzoli
      Pages 123-134

    2. Qualitative Reasoning on Systematic Gene Perturbation Experiments

      • Francesco Sambo, Barbara Di Camillo
      Pages 135-146

    3. Biclustering by Resampling

      • Ekaterina Nosova, Roberto Tagliaferri, Francesco Masulli, Stefano Rovetta
      Pages 147-158

    4. Labeling Negative Examples in Supervised Learning of New Gene Regulatory Connections

      • Luigi Cerulo, Vincenzo Paduano, Pietro Zoppoli, Michele Ceccarelli
      Pages 159-173

    5. MOSCFRA: A Multi-objective Genetic Approach for Simultaneous Clustering and Gene Ranking

      • Kartick Chandra Mondal, Anirban Mukhopadhyay, Ujjwal Maulik, Sanghamitra Bandhyapadhyay, Nicolas Pasquier
      Pages 174-187

  7. Bio-medical Text Mining and Imaging – Methods for Diagnosis and Prognosis

    1. A Multi-relational Learning Framework to Support Biomedical Applications

      • Teresa M. A. Basile, Floriana Esposito, Laura Caponetti
      Pages 188-202

    2. Data Driven Generation of Fuzzy Systems: An Application to Breast Cancer Detection

      • Antonio d’Acierno, Giuseppe De Pietro, Massimo Esposito
      Pages 203-214

    3. A Knowledge Based Decision Support System for Bioinformatics and System Biology

      • Antonino Fiannaca, Salvatore Gaglio, Massimo La Rosa, Daniele Peri, Riccardo Rizzo, Alfonso Urso
      Pages 215-228

  8. Mathematical Modelling and Simulation of Biological Systems

    1. Dynamic Simulations of Pathways Downstream of ERBB-Family: Exploration of Parameter Space and Effects of Its Variation on Network Behavior

      • Lorenzo Tortolina, Nicoletta Castagnino, Cristina De Ambrosi, Raffaele Pesenti, Franco Patrone, Alberto Ballestrero et al.
      Pages 229-241

    2. Robustness Analysis of a Linear Dynamical Model of the Drosophila Gene Expression

      • Alexandre Haye, Jaroslav Albert, Marianne Rooman
      Pages 242-252
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Other volumes

  1. Computational Intelligence Methods for Bioinformatics and Biostatistics

Editors and Affiliations

  • ICAR-CNR, Consiglio Nazionale delle Ricerche, Palermo, Italy

    Riccardo Rizzo

  • School of Computing and Mathematical Sciences, Liverpool John Moores University, Liverpool, UK

    Paulo J. G. Lisboa

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