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A new type of unsupervised growing neural network for biological sequence classification that adopts the topology of a phylogenetic tree

  • Joaquín Dopazo
  • Huaichun Wang
  • José María Carazo
Methodology for Data Analysis, Task Selection and Nets Design
Part of the Lecture Notes in Computer Science book series (LNCS, volume 1240)

Abstract

We propose a new type of unsupervised growing self-organizing neural network that expands itself following the taxonomic relationships existing among the sequences being classified. The binary tree topology of this neural network, opposite to other more classical neural network topologies, permits an efficient classification of sequences. The growing nature of this procedure allows to stop it at the desired taxonomic level without the necessity of waiting until a complete phylogenetic tree is produced. This novel approach presents a number of other interesting properties, such as a time for convergence which is, approximately, a lineal function of the number of sequences. Computer simulation and a real example shows that the algorithm accurately finds the phylogenetic tree that relates the data. All this makes of the neural network presented here an excellent tool for the phylogenetic analysis of large number of sequences.

Keywords

Neural Network Binary Tree Sequence Vector Nucleic Acid Research Ancestor Node 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

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Copyright information

© Springer-Verlag Berlin Heidelberg 1997

Authors and Affiliations

  • Joaquín Dopazo
    • 1
  • Huaichun Wang
    • 2
  • José María Carazo
    • 2
  1. 1.Glaxo Wellcome s.a.Tres Cantos (Madrid)Spain
  2. 2.Centro Nacional de Biotecnología. CSlCUniversidad AutonomaCantoblanco, MadridSpain

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