SpringerBriefs in Computer Science

Information-Theoretic Evaluation for Computational Biomedical Ontologies

Authors: Clark, Wyatt Travis

  • Provides a concise overview of a proven method for evaluating the performance of computational protein-function prediction
  • Proposes a solution that is critical in disease-gene prioritisation, an increasingly hot topic
  • Defines important concepts for scientists using information-theoretic approaches in their algorithms development
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  • ISBN 978-3-319-04138-4
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About this book

The development of effective methods for the prediction of ontological annotations is an important goal in computational biology, yet evaluating their performance is difficult due to problems caused by the structure of biomedical ontologies and incomplete annotations of genes. This work proposes an information-theoretic framework to evaluate the performance of computational protein function prediction. A Bayesian network is used, structured according to the underlying ontology, to model the prior probability of a protein's function. The concepts of misinformation and remaining uncertainty are then defined, that can be seen as analogs of precision and recall. Finally, semantic distance is proposed as a single statistic for ranking classification models. The approach is evaluated by analyzing three protein function predictors of gene ontology terms. The work addresses several weaknesses of current metrics, and provides valuable insights into the performance of protein function prediction tools.

Table of contents (4 chapters)

Buy this book

eBook $39.99
price for USA (gross)
  • ISBN 978-3-319-04138-4
  • Digitally watermarked, DRM-free
  • Included format: PDF, EPUB
  • ebooks can be used on all reading devices
  • Immediate eBook download after purchase
Softcover $54.99
price for USA
  • ISBN 978-3-319-04137-7
  • Free shipping for individuals worldwide
  • Usually dispatched within 3 to 5 business days.
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Bibliographic Information

Bibliographic Information
Book Title
Information-Theoretic Evaluation for Computational Biomedical Ontologies
Authors
Series Title
SpringerBriefs in Computer Science
Copyright
2014
Publisher
Springer International Publishing
Copyright Holder
The Author(s)
eBook ISBN
978-3-319-04138-4
DOI
10.1007/978-3-319-04138-4
Softcover ISBN
978-3-319-04137-7
Series ISSN
2191-5768
Edition Number
1
Number of Pages
VII, 46
Number of Illustrations and Tables
6 b/w illustrations, 6 illustrations in colour
Topics