Pattern Recognition in Bioinformatics

5th IAPR International Conference, PRIB 2010, Nijmegen, The Netherlands, September 22-24, 2010. Proceedings

  • Tjeerd M. H. Dijkstra
  • Evgeni Tsivtsivadze
  • Elena Marchiori
  • Tom Heskes
Conference proceedings PRIB 2010

Part of the Lecture Notes in Computer Science book series (LNCS, volume 6282)

Also part of the Lecture Notes in Bioinformatics book sub series (LNBI, volume 6282)

Table of contents

  1. Front Matter
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  2. Classification of Biological Sequences

    1. Front Matter
      Pages 1-1
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    2. Sequence-Based Prediction of Protein Secretion Success in Aspergillus niger
      Bastiaan A. van den Berg, Jurgen F. Nijkamp, Marcel J. T. Reinders, Liang Wu, Herman J. Pel, Johannes A. Roubos et al.
      Pages 3-14
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    3. Machine Learning Study of DNA Binding by Transcription Factors from the LacI Family
      Gennady G. Fedonin, Mikhail S. Gelfand
      Pages 15-26
      PDF
    4. Joint Loop End Modeling Improves Covariance Model Based Non-coding RNA Gene Search
      Jennifer Smith
      Pages 27-37
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    5. Structured Output Prediction of Anti-cancer Drug Activity
      Hongyu Su, Markus Heinonen, Juho Rousu
      Pages 38-49
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    6. SLiMSearch: A Webserver for Finding Novel Occurrences of Short Linear Motifs in Proteins, Incorporating Sequence Context
      Norman E. Davey, Niall J. Haslam, Denis C. Shields, Richard J. Edwards
      Pages 50-61
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    7. Towards 3D Modeling of Interacting TM Helix Pairs Based on Classification of Helix Pair Sequence
      Witold Dyrka, Jean-Christophe Nebel, Malgorzata Kotulska
      Pages 62-73
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    8. Optimization Algorithms for Identification and Genotyping of Copy Number Polymorphisms in Human Populations
      Gökhan Yavaş, Mehmet Koyutürk, Thomas LaFramboise
      Pages 74-85
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    9. Preservation of Statistically Significant Patterns in Multiresolution 0-1 Data
      Prem Raj Adhikari, Jaakko Hollmén
      Pages 86-97
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    10. Novel Machine Learning Methods for MHC Class I Binding Prediction
      Christian Widmer, Nora C. Toussaint, Yasemin Altun, Oliver Kohlbacher, Gunnar Rätsch
      Pages 98-109
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  3. Unsupervised Learning Methods for Biological Sequences

    1. Front Matter
      Pages 111-111
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    2. SIMCOMP: A Hybrid Soft Clustering of Metagenome Reads
      Shruthi Prabhakara, Raj Acharya
      Pages 113-124
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    3. The Complexity and Application of Syntactic Pattern Recognition Using Finite Inductive Strings
      Elijah Myers, Paul S. Fisher, Keith Irwin, Jinsuk Baek, Joao Setubal
      Pages 125-136
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    4. An Algorithm to Find All Identical Motifs in Multiple Biological Sequences
      Ashish Kishor Bindal, R. Sabarinathan, J. Sridhar, D. Sherlin, K. Sekar
      Pages 137-148
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    5. Discovery of Non-induced Patterns from Sequences
      Andrew K. C. Wong, Dennis Zhuang, Gary C. L. Li, En-Shiun Annie Lee
      Pages 149-160
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    6. Exploring Homology Using the Concept of Three-State Entropy Vector
      Armando J. Pinho, Sara P. Garcia, Paulo J. S. G. Ferreira, Vera Afreixo, Carlos A. C. Bastos, António J. R. Neves et al.
      Pages 161-170
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    7. A Maximum-Likelihood Formulation and EM Algorithm for the Protein Multiple Alignment Problem
      Valentina Sulimova, Nikolay Razin, Vadim Mottl, Ilya Muchnik, Casimir Kulikowski
      Pages 171-182
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    8. Polynomial Supertree Methods Revisited
      Malte Brinkmeyer, Thasso Griebel, Sebastian Böcker
      Pages 183-194
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    9. Enhancing Graph Database Indexing by Suffix Tree Structure
      Vincenzo Bonnici, Alfredo Ferro, Rosalba Giugno, Alfredo Pulvirenti, Dennis Shasha
      Pages 195-203
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About these proceedings

Keywords

DNA signature algorithm complexity biclustering bioinformatics biomedical informatics classification clustering computational geometry convex optimization data mining databases dynamic programming evolutionary algorithms gene expression gene network

Editors and affiliations

  • Tjeerd M. H. Dijkstra
    • 1
  • Evgeni Tsivtsivadze
    • 2
  • Elena Marchiori
    • 1
  • Tom Heskes
    • 1
  1. 1.Institute for Computing and Information SciencesRadboud University NijmegenNijmegenThe Netherlands
  2. 2.Institute for Computing and Information SciencesTurku Centre for Computer Science, Radboud University NijmegenNijmegenThe Netherlands

Bibliographic information

  • DOI https://doi.org/10.1007/978-3-642-16001-1
  • Copyright Information Springer Berlin Heidelberg 2010
  • Publisher Name Springer, Berlin, Heidelberg
  • eBook Packages Computer Science
  • Print ISBN 978-3-642-16000-4
  • Online ISBN 978-3-642-16001-1
  • Series Print ISSN 0302-9743
  • Series Online ISSN 1611-3349
  • About this book