Table of contents

  1. Front Matter
    Pages I-X
    PDF

  2. Invited Talk

    1. Front Matter
      Pages 1-1
      PDF
    2. The Trees in the Peaks
      David Sankoff, Chunfang Zheng, Eric Lyons, Haibao Tang
      Pages 3-14

  3. Biological Networks and Modelling

    1. Front Matter
      Pages 15-15
      PDF
    2. Relating Bisimulations with Attractors in Boolean Network Models
      Daniel Figueiredo
      Pages 17-25
    3. Neural Networks Simulation of Feeding Adaptations of Daphnia
      Tibor Kmet, Maria Kmetova
      Pages 26-37
    4. Generating the Logicome of a Biological Network
      Charmi Panchal, Sepinoud Azimi, Ion Petre
      Pages 38-49

  4. Biological Structure Processing

    1. Front Matter
      Pages 51-51
      PDF
    2. Counting, Generating and Sampling Tree Alignments
      Cedric Chauve, Julien Courtiel, Yann Ponty
      Pages 53-64
    3. A New Multi-objective Approach for Molecular Docking Based on RMSD and Binding Energy
      Esteban López-Camacho, María Jesús García-Godoy, José García-Nieto, Antonio J. Nebro, José F. Aldana-Montes
      Pages 65-77
    4. Gibbs/MCMC Sampling for Multiple RNA Interaction with Sub-optimal Solutions
      Saad Mneimneh, Syed Ali Ahmed
      Pages 78-90

  5. Phylogenetics

    1. Front Matter
      Pages 91-91
      PDF
    2. Accumulated Coalescence Rank and Excess Gene Count for Species Tree Inference
      Sourya Bhattacharyya, Jayanta Mukhopadhyay
      Pages 93-105
    3. Bootstrapping Algorithms for Gene Duplication and Speciation Events
      Agnieszka Mykowiecka, Pawel Górecki
      Pages 106-118
    4. Robustness of the Parsimonious Reconciliation Method in Cophylogeny
      Laura Urbini, Blerina Sinaimeri, Catherine Matias, Marie-France Sagot
      Pages 119-130

  6. Sequence Analysis and Rearrangement

    1. Front Matter
      Pages 131-131
      PDF
    2. Sorting with Forbidden Intermediates
      Carlo Comin, Anthony Labarre, Romeo Rizzi, Stéphane Vialette
      Pages 133-144
    3. Evaluation and Improvement of Fast Algorithms for Exact Matching on Genome Sequences
      Simone Faro
      Pages 145-157
    4. Identification of Variant Compositions in Related Strains Without Reference
      Mikko Rautiainen, Leena Salmela, Veli Mäkinen
      Pages 158-170
    5. New Error Tolerant Method for Search of Long Repeats in DNA Sequences
      Sergey P. Tsarev, Michael G. Sadovsky
      Pages 171-182

About these proceedings

Introduction

This book constitutes the proceedings of the Third International
Conference on Algorithms for Computational Biology, AlCoB 2016, held in
Trujillo, Spain, in June 2016.

The 13 full papers presented in this volume were carefully reviewed and
selected from 23 submissions. They are organized in the following topical sections: biological networks and modelling; biological structure processing; phylogenetics; and sequence analysis and rearrangement. In addition one invited talk is included.

Keywords

bioinformatics computational biology experimental algorithms life and medical sciences nature inspired metaheuristics biological networks biomodeling bisimulations computational genomics design and analysis of algorithms event-based methods exact sequence analysis fast search genomics imaging molecular evolution multi-objective optimization permutation sorting string matching systems biology

Editors and affiliations

  • María Botón-Fernández
    • 1
  • Carlos Martín-Vide
    • 2
  • Sergio Santander-Jiménez
    • 3
  • Miguel A. Vega-Rodríguez
    • 4
  1. 1.CETA-CiematTrujilloSpain
  2. 2.Rovira i Virgili UniversityTarragonaSpain
  3. 3.University of ExtremaduraCáceresSpain
  4. 4.University of ExtremaduraCáceresSpain

Bibliographic information

  • DOI https://doi.org/10.1007/978-3-319-38827-4
  • Copyright Information Springer International Publishing Switzerland 2016
  • Publisher Name Springer, Cham
  • eBook Packages Computer Science
  • Print ISBN 978-3-319-38826-7
  • Online ISBN 978-3-319-38827-4
  • Series Print ISSN 0302-9743
  • Series Online ISSN 1611-3349
  • About this book