Prediction of Gene-encoding regions in E.Coli DNA using an Optimal Parse Method with Multiple Types of Evidence

David E. Konerding
Crown College
University of California, Santa Cruz, CA 95064, USA
email:rafael@cse.ucsc.edu

Submitted Sun May 21 12:20:05 PDT 1995 as undergraduate thesis for completion of graduation as Bachelor of Arts in Biochemistry and Molecular Biology

• Contents
• Introduction
  • Gene Recognition
  • Gene Recognition by computers
  • HMMs and Neural Networks
  • Parsers
  • Limitations of the Sensors
  • Application to Other Genomes
• Method
  • Generating L Matrices
  • Finding the Best Parse
  • Gene Encoding Measures
• Refinments to the Optimal Parse Method
• Data
• Results
• Conclusion
  • What the Parser Can't Do
  • How to Fix It
  • Overall Evaluation of My Progress
  • Acknowledgements
• Distributions
• References
• List of Figures
• List of Tables
• About this document ...